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1. Rethinking Iconic Species Reforestation in West Africa: Seed Shape Harnessing Is Strategic for Enhanced Germination and Vigorous Growth in Khaya senegalensis and Parkia biglobosa

Author: Adji, Beda, Letort, Véronique, Wang, Xiujuan, Kang, Mengzhen, de Reffye, Philippe, Jaeger, Marc, Cilas, Christian, Kouassi, Kouadio, Duminil, Jérôme, Sabatier, Sylvie, Akaffou, Doffou, Université Jean Lorougnon Guédé (UJloG ), Mathématiques et Informatique pour la Complexité et les Systèmes (MICS), CentraleSupélec-Université Paris-Saclay, Chinese Academy of Sciences [Beijing] (CAS), Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), AMAP Lab [Saint-Pierre - La réunion], Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Département Systèmes Biologiques (Cirad-BIOS), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), Cirad Direction Générale (Cirad-DG), Diversité, adaptation, développement des plantes (UMR DIADE), and Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Université de Montpellier (UM)
Subjects: Khaya senegalensis, Côte d'Ivoire, [SDE]Environmental Sciences, Parkia biglobosa, seed quality, reforestation, seed quality reforestation Khaya senegalensis Parkia biglobosa Côte d'Ivoire
Abstract: International audience; Seed size is a critical factor that can impact the regeneration process of plant populations. The objective of this study is to identify optimal seeds for the cultivation of two overexploited native forest species in Côte d'Ivoire, namely Khaya senegalensis (Desr.) A.Juss., 1830 and Parkia biglobosa (Jacq.) R.BR. ex G. Don, 1830. A total of 1080 seeds per species were evaluated for germination and seedling vigour in two distinct environments (dry and humid) in Côte d'Ivoire. The results demonstrated that, for Khaya senegalensis, larger seeds exhibited higher germination rates, whereas for Parkia biglobosa, smaller and medium-sized seeds showed better germination performance. However, regardless of species and study site, larger seeds consistently produced more vigorous seedlings. In this case, pretreatment tests on large seeds of Parkia biglobosa can potentially enhance their germination performance. Large seeds, ranging from 0.25-0.37 g in Khaya senegalensis and 0.2-0.32 g in Parkia biglobosa, appear to be the most suitable and best candidates for high-quality, high-performance seeds to optimise the cultivation of these species in Côte d'Ivoire. Distributing such seeds to farmers can contribute to the success of reforestation and agroforestry programs involving these target species in Côte d'Ivoire. These findings contribute to the sustainable management of the target species and can serve as a basis for restructuring forest regeneration policies in Côte d'Ivoire.
Published: 2023

2. About sterile insect control strategies in a two patches system

Author: Dumont, Yves, Duprez, Michel, Privat, Yannick, Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud]), AMAP Lab [Saint-Pierre - La réunion], Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Département Systèmes Biologiques (Cirad-BIOS), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), Department of Mathematics and Applied Mathematics, University of Pretoria, Laboratoire des sciences de l'ingénieur, de l'informatique et de l'imagerie (ICube), École Nationale du Génie de l'Eau et de l'Environnement de Strasbourg (ENGEES)-Université de Strasbourg (UNISTRA)-Institut National des Sciences Appliquées - Strasbourg (INSA Strasbourg), Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Institut National de Recherche en Informatique et en Automatique (Inria)-Les Hôpitaux Universitaires de Strasbourg (HUS)-Centre National de la Recherche Scientifique (CNRS)-Matériaux et Nanosciences Grand-Est (MNGE), Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS)-Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS)-Réseau nanophotonique et optique, Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Centre National de la Recherche Scientifique (CNRS)-Université de Strasbourg (UNISTRA)-Centre National de la Recherche Scientifique (CNRS), Computational Anatomy and Simulation for Medicine (MIMESIS), Inria Nancy - Grand Est, Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria)-Laboratoire des sciences de l'ingénieur, de l'informatique et de l'imagerie (ICube), Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Centre National de la Recherche Scientifique (CNRS)-Université de Strasbourg (UNISTRA)-Centre National de la Recherche Scientifique (CNRS)-École Nationale du Génie de l'Eau et de l'Environnement de Strasbourg (ENGEES)-Université de Strasbourg (UNISTRA)-Institut National des Sciences Appliquées - Strasbourg (INSA Strasbourg), Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Les Hôpitaux Universitaires de Strasbourg (HUS)-Centre National de la Recherche Scientifique (CNRS)-Matériaux et Nanosciences Grand-Est (MNGE), Institut de Recherche Mathématique Avancée (IRMA), Université de Strasbourg (UNISTRA)-Centre National de la Recherche Scientifique (CNRS), Institut Universitaire de France (IUF), and Ministère de l'Education nationale, de l’Enseignement supérieur et de la Recherche (M.E.N.E.S.R.)
Subjects: metapopulation model, optimal control, Bactrocera dorsalis, Control strategies, Sterile Insect Technique, monotone cooperative system, [MATH.MATH-DS]Mathematics [math]/Dynamical Systems [math.DS], biological control, patches
Abstract: International audience; Sterile Insect Technique is an autocidal method to control Vector of diseases and crop pest. It consists of releasing males sterilized by ionization, in a targeted area, that will mate with the wild females, resulting in a reduce, eventually a local elimination, of the wild population. However, migration of wild insects, from a non-targeted area, can be problematic and reduce the efficiency of SIT [1]. The control strategies should be adapted to take this issue into account. We consider a two patches system, where Patch 1 is the targeted area linked to another area, Patch 2, that needs not to be controlled. Wild and sterile insects can circulate between the two Patches, so that different issues have to be solved. Is it possible to find one or several strategies, and among them an optimal strategy, to reach elimination in patch 1? Should we control both patches? Using results related to monotone cooperative systems [2] and also tools from optimal control theory, we will show some theoretical responses [3]. We will also illustrate the theoretical results with numerical simulations and discuss the extension of our results.
Published: 2023

3. Spatial spread of infectious diseases with conditional vector preferences

Author: Hamelin, Frédéric, Hilker, Frank M., Dumont, Yves, Institut de Génétique, Environnement et Protection des Plantes (IGEPP), Université de Rennes (UR)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Rennes Angers, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), Universität Osnabrück - Osnabrück University, Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Département Systèmes Biologiques (Cirad-BIOS), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), AMAP Lab [Saint-Pierre - La réunion], Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), University of Pretoria [South Africa], Sergey Petrovskii (University of Leicester), Jean-Christophe Poggiale (Aix-Marseille Université), and Suzanne Touzeau (INRAE Sophia Antipolis)
Subjects: Front reversal, Monostable traveling wave, Traveling wave solution, Bistable traveling wave, [SDE]Environmental Sciences, Backward bifurcation, Monotone system, Vector preference, [MATH]Mathematics [math], Partial differential equations
Abstract: International audience; We explore the spatial spread of vector-borne infections with conditional vector preferences, meaning that vectors do not visit hosts at random. Vectors may be differentially attracted toward infected and uninfected hosts depending on whether they carry the pathogen or not. The model is expressed as a system of partial differential equations with vector diffusion. We first study the diffusion-less model. We show that conditional vector preferences alone (in the absence of any epidemiological feedback on their population dynamics) may result in bistability between the disease-free equilibrium and an endemic equilibrium. A backward bifurcation may allow the disease to persist even though its basic reproductive number is less than one. Bistability can occur only if both infected and uninfected vectors prefer uninfected hosts. Back to the model with diffusion, we show that bistability in the local dynamics may generate travelling waves with either positive or negative spreading speeds, meaning that the disease either invades or retreats into space. In the monostable case, we show that the disease spreading speed depends on the preference of uninfected vectors for infected hosts but not on the preference of infected vectors for uninfected hosts. We discuss the implications of our results for vector-borne plant diseases, which are the main source of evidence for conditional vector preferences so far.
Published: 2023

4. A sex-structured model of Wolbachia invasion to design sex-biased release strategies in Aedes spp mosquitoes populations

Author: Pierre-Alexandre Bliman, Yves Dumont, Oscar Eduardo Escobar-Lasso, Hector J. Martinez-Romero, Olga Vasilieva, Modelling and Analysis for Medical and Biological Applications (MAMBA), Inria de Paris, Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria)-Laboratoire Jacques-Louis Lions (LJLL (UMR_7598)), Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), AMAP Lab [Saint-Pierre - La réunion], Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Département Systèmes Biologiques (Cirad-BIOS), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), Department of Mathematics and Applied Mathematics [Pretoria], University of Pretoria [South Africa], Universidad del Valle [Cali] (Univalle), E. Escobar, Hector J. Martinez, and Olga Vasilieva acknowledge financial support from the National Fund for Science, Technology, and Innovation (Autonomous Heritage Fund Francisco José de Caldas) by way of the Research Program No. 1106-852-69523, Contract: CT FP 80740-439-2020 (Colombian Ministry of Science, Technology, and Innovation – Minciencias), Grant ID: CI-71241 (Universidad del Valle). The endorsement obtained from the STIC AmSud Program for regional cooperation (20-STIC-05 NEMBICA project) is gratefully recognized by all authors., Yves Dumont is (partially) supported by the DST/NRF SARChI Chair in Mathematical Models and Methods in Biosciences and Bioengineering at the University of Pretoria (Grant 82770). Yves Dumont acknowledges the support of DST/NRF Incentive Grant (Grant 119898) and the support of the Conseil Régional de la Réunion, the Conseil Départemental de la Réunion, the European Agricultural Fund for Rural Development (EAFRD) and the Centre de Coopération Internationale en Recherche Agronomique pour le Développement (CIRAD)., Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPC)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPC), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), and E. Escobar, Hector J. Martinez, and Olga Vasilieva acknowledge financial support from the National Fund for Science, Technology, and Innovation (Autonomous Heritage Fund Francisco José de Caldas) by way of the Research Program No. 1106-852-69523, Contract: CT FP 80740-439-2020 (Colombian Ministry of Science, Technology, and Innovation – Minciencias), Grant ID: CI-71241 (Universidad del Valle). The endorsement obtained from the STIC AmSud Program for regional cooperation (20-STIC-05 NEMBICA project) is gratefully recognized by all authors. Yves Dumont is (partially) supported by the DST/NRF SARChI Chair in Mathematical Models and Methods in Biosciences and Bioengineering at the University of Pretoria (Grant 82770). Yves Dumont acknowledges the support of DST/NRF Incentive Grant (Grant 119898) and the support of the Conseil Régional de la Réunion, the Conseil Départemental de la Réunion, the European Agricultural Fund for Rural Development (EAFRD) and the Centre de Coopération Internationale en Recherche Agronomique pour le Développement (CIRAD).
Subjects: Applied Mathematics, biochemical phenomena, metabolism, and nutrition, Aedes spp, Male-biased releases, Population replacement, Modeling and Simulation, parasitic diseases, Numerical simulations, bacteria, [SDV.SPEE]Life Sciences [q-bio]/Santé publique et épidémiologie, [MATH.MATH-OC]Mathematics [math]/Optimization and Control [math.OC], Qualitative Analysis, [MATH]Mathematics [math], Sex-structured model, Wolbachia symbiont, reproductive and urinary physiology, Ordinary differential equations
Abstract: Laboratory experiments as well as some field essays have revealed that the intracellular bacterium Wolbachia, deliberately introduced in Aedes spp female mosquitoes, drastically reduces their vector competence for dengue virus and, also, other mosquito-borne viral diseases. However, female mosquitoes infected with Wolbachia still need to ingest human blood while male mosquitoes, either wild or Wolbachia-carrying, do not bite people. As such, Wolbachia-carrying females may transmit the virus to people during blood-feeding, even though with far less probability than the wild ones. Therefore, massive releases of Wolbachia-carrying females may increase both the nuisance and the epidemiological risk among human residents. With the goal of exploring in depth the practical aspects of sex-biased releases, we introduce in this paper a simple sex-structured model of Wolbachia invasion that brings forward the possibility of developing male-biased release strategies of Wolbachia-carriers leading to Wolbachia invasion. Thanks to this model, we study at length the minimal amount of mosquitoes necessary to complete this task, according to the relative sex-ratio of the released mosquitoes and the release schedule. We also pay attention to the estimate of the time needed to achieve the ultimate population replacement.
Published: 2023

5. Modeling the impact of rainfall and temperature on sterile insect control strategies in a Tropical environment

Author: Dumont, Yves, Duprez, Michel, Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), AMAP Lab [Saint-Pierre - La réunion], Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Department of Mathematics and Applied Mathematics [Pretoria], University of Pretoria [South Africa], Département Systèmes Biologiques (Cirad-BIOS), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), Computational Anatomy and Simulation for Medicine (MIMESIS), Inria Nancy - Grand Est, Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria)-Laboratoire des sciences de l'ingénieur, de l'informatique et de l'imagerie (ICube), École Nationale du Génie de l'Eau et de l'Environnement de Strasbourg (ENGEES)-Université de Strasbourg (UNISTRA)-Institut National des Sciences Appliquées - Strasbourg (INSA Strasbourg), Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Institut National de Recherche en Informatique et en Automatique (Inria)-Les Hôpitaux Universitaires de Strasbourg (HUS)-Centre National de la Recherche Scientifique (CNRS)-Matériaux et Nanosciences Grand-Est (MNGE), Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS)-Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS)-Réseau nanophotonique et optique, Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Centre National de la Recherche Scientifique (CNRS)-Université de Strasbourg (UNISTRA)-Centre National de la Recherche Scientifique (CNRS)-École Nationale du Génie de l'Eau et de l'Environnement de Strasbourg (ENGEES)-Université de Strasbourg (UNISTRA)-Institut National des Sciences Appliquées - Strasbourg (INSA Strasbourg), Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Les Hôpitaux Universitaires de Strasbourg (HUS)-Centre National de la Recherche Scientifique (CNRS)-Matériaux et Nanosciences Grand-Est (MNGE), Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Centre National de la Recherche Scientifique (CNRS)-Université de Strasbourg (UNISTRA)-Centre National de la Recherche Scientifique (CNRS), Laboratoire des sciences de l'ingénieur, de l'informatique et de l'imagerie (ICube), This work is partially supported by the 'SIT feasibility project against Aedes albopictus in Réunion Island', TIS 2B (2020-2022), jointly funded by the French Ministry of Health and the European Regional Development Fund (ERDF). YD is (partially) supported by the DST/NRF SARChI Chair in Mathematical Models and Methods in Biosciences and Bioengineering at the University of Pretoria (Grant 82770). YD acknowledges the support of DST/NRF Incentive Grant (Grant 119898). YD acknowledges the support of the Conseil Régional de la Réunion, the Conseil Départemental de la Réunion, the European Agricultural Fund for Rural Development (EAFRD) and the Centre de Coopération Internationale en Recherche Agronomique pour le Développement (CIRAD)., Duprez, Michel, and Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria)
Subjects: Rainfall, Sterile Insect Technique, Temperature, Epidemiological risk, [MATH.MATH-OC] Mathematics [math]/Optimization and Control [math.OC], Nuisance reduction, Numerical simulation, [INFO.INFO-MO]Computer Science [cs]/Modeling and Simulation, Vector control, Aedes spp, Residual fertility, Optimization and Control (math.OC), FOS: Mathematics, Mathematical modeling, [INFO.INFO-MO] Computer Science [cs]/Modeling and Simulation, [MATH.MATH-OC]Mathematics [math]/Optimization and Control [math.OC], Mathematics - Optimization and Control
Abstract: The sterile insect technique (SIT) is a biological control technique that can be used either to eliminate or decay a wild mosquito population under a given threshold to reduce the nuisance or the epidemiological risk. In this work, we propose a model using a differential system that takes into account the variations of rainfall and temperature over time and study their impacts on sterile males releases strategies. Our model is as simple as possible to avoid complexity while being able to capture the temporal variations of an Aedes albopictus mosquito population in a domain treated by SIT, located in R{\'e}union island. The main objective is to determine what period of the year is the most suitable to start a SIT control to minimize the duration of massive releases and the amount of sterile males to release, either to reduce the mosquito nuisance, or to reduce the epidemiological risk. Since sterilization is not 100% efficient, we also study the impact of different levels of residual fertility within the released sterile male population. Our study shows that rainfall plays a major role in the dynamics of the mosquito and the SIT control, that the best period to start a massive SIT treatment lasts from July to December, that residual fertility has to be as small as possible, and that increasing the size of the releases is not always necessarily interesting. We also highlight the importance of combining SIT with mechanical control, i.e. the removal of breeding sites, in particular when the initial mosquito population is large.
Published: 2022

6. Contrasting drought-response strategies and vulnerability to hydraulic failure in saplings of rainforest tree species

Author: Ziegler, Camille, Cochard, Hervé, Levionnois, Sébastien, Stahl, Clement, Foltzer, Louis, Gérard, Bastien, Goret, Jean-Yves, Heuret, Patrick, Maillard, Pascale, Bonal, Damien, Coste, Sabrina, Ecologie des forêts de Guyane (UMR ECOFOG), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-AgroParisTech-Université de Guyane (UG)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), SILVA (SILVA), AgroParisTech-Université de Lorraine (UL)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Laboratoire de Physique et Physiologie Intégratives de l’Arbre en environnement Fluctuant (PIAF), Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université Clermont Auvergne (UCA), AMAP Lab [Saint-Pierre - La réunion], Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), and Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM)
Subjects: [SDV]Life Sciences [q-bio]
Abstract: International audience
Published: 2022

7. Epidemiological assessment of Wolbachia-based biocontrol for reduction of dengue morbidity

Author: Vasilieva, Olga, Escobar, Oscar, Martinez, Hector, Bliman, Pierre-Alexandre, Dumont, Yves, Universidad del Valle [Cali] (Univalle), Modelling and Analysis for Medical and Biological Applications (MAMBA), Inria de Paris, Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria)-Laboratoire Jacques-Louis Lions (LJLL (UMR_7598)), Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), AMAP Lab [Saint-Pierre - La réunion], Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), University of Pretoria [South Africa], Département Systèmes Biologiques (Cirad-BIOS), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), ECOS-Nord project (C17M01-France – CI-71089-Colombia), and 20-STIC-05 NEMBICA project
Subjects: Dengue, Population replacement, [SDV]Life Sciences [q-bio], parasitic diseases, Epidemiological risk, Epidemiological model, [MATH]Mathematics [math], Sex-structured model, Wolbachia symbiont, reproductive and urinary physiology, Aedes spp
Abstract: International audience; Wolbachia-based biological control has recently emerged as an ecologically friendly and potentially cost-effective method for prevention and control of dengue and other arboviral infections. When deliberately infected withWolbachia, major vector species, such as Aedes aegypti females, lose their vectorial competence and become less capable of transmitting the virus to humans. Thus, Wolbachia-based biocontrol aims to replace wild vectors (fully capable of transmitting arboviral infections) by Wolbachia-carrying insects that bear a reduced transmission capacity. The population replacement can be achieved by releasing mosquitoes that were transinfected with Wolbachia during the process of mass-rearing.In this presentation, we propose a sex-structured model describing the dynamics of two sup-populations of adult mosquitoes: the wild insects (males and females that are Wolbachia- free), and those deliberately infected with Wolbachia. This model is biologically viable, well-posed, and reflects the two significant features of Wolbachia: maternal transmission and cytoplasmic incompatibility. The model also exhibits bistability that agrees with the principle of competitive exclusion.Using this mosquito population dynamics model, we further construct a dengue transmission system of SEIR-SEI type to perform an epidemiological assessment of Wolbachia-based control for prevention of dengue morbidity. As an example, we simulate this type of preventive control applied to Cali, a sizeable Colombian city commonly considered a hyperendemic area regarding dengue morbidity.
Published: 2022

8. Butene Emissions From Coastal Ecosystems May Contribute to New Particle Formation

Author: Giorio, Chiara, Doussin, Jean‐François, D’Anna, Barbara, Mas, Sébastien, Filippi, Daniele, Denjean, Cyrielle, Mallet, Marc Daniel, Bourrianne, Thierry, Burnet, Frédéric, Cazaunau, Mathieu, Chikwililwa, Chibo, Desboeufs, Karine, Feron, Anaïs, Michoud, Vincent, Namwoonde, Andreas, Andreae, Meinrat O, Piketh, Stuart J, Formenti, Paola, Laboratoire Interuniversitaire des Systèmes Atmosphériques (LISA (UMR_7583)), Institut national des sciences de l'Univers (INSU - CNRS)-Université Paris-Est Créteil Val-de-Marne - Paris 12 (UPEC UP12)-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), Laboratoire Chimie de l'environnement (LCE), Aix Marseille Université (AMU)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS), Observatoire de REcherche Méditerranéen de l'Environnement (OSU OREME), Institut national des sciences de l'Univers (INSU - CNRS)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Giorio, Chiara [0000-0001-7821-7398], Doussin, Jean‐François [0000-0002-8042-7228], D’Anna, Barbara [0000-0003-1985-229X], Denjean, Cyrielle [0000-0001-5559-5732], Mallet, Marc Daniel [0000-0003-2749-8833], Cazaunau, Mathieu [0000-0003-4024-8978], Namwoonde, Andreas [0000-0003-1209-2574], Andreae, Meinrat O [0000-0003-1968-7925], Formenti, Paola [0000-0002-0372-1351], Apollo - University of Cambridge Repository, Université Montpellier 2 - Sciences et Techniques (UM2)-Institut national des sciences de l'Univers (INSU - CNRS)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Giorio, C [0000-0001-7821-7398], Doussin, JF [0000-0002-8042-7228], D’Anna, B [0000-0003-1985-229X], Denjean, C [0000-0001-5559-5732], Mallet, MD [0000-0003-2749-8833], Cazaunau, M [0000-0003-4024-8978], Namwoonde, A [0000-0003-1209-2574], Andreae, MO [0000-0003-1968-7925], and Formenti, P [0000-0002-0372-1351]
Subjects: 13 Climate Action, Geophysics, [SDU]Sciences of the Universe [physics], [SDU.STU.CL]Sciences of the Universe [physics]/Earth Sciences/Climatology, 3701 Atmospheric Sciences, General Earth and Planetary Sciences, 37 Earth Sciences, 41 Environmental Sciences
Abstract: International audience; Marine ecosystems are important drivers of the global climate system. They emit volatile species into the atmosphere, involved in complex reaction cycles that influence the lifetime of greenhouse gases. Sea spray and marine biogenic aerosols affect Earth's climate by scattering solar radiation and controlling cloud microphysical properties. Here we show larger than expected marine biogenic emissions of butenes, three orders of magnitude higher than dimethyl sulfide, produced by the coastal part of the Benguela upwelling system, one of the most productive marine ecosystems in the world. We show that these emissions may contribute to new particle formation in the atmosphere within the marine boundary layer through production of Criegee intermediates that oxidize SO2 to H2SO4. Butene emissions from the marine biota may affect air quality and climate through ozone, secondary organic aerosol, and cloud condensation nuclei formation even in pristine regions of the world. Our results indicate a potentially important role of butene emissions in marine particle formation that requires investigation in other regions.
Published: 2022

9. Carotenoid absorption in rats fed with vacuum-fried papaya chips depends on processed food microstructure associated with saturated and unsaturated oils

Author: Patrick Poucheret, Geneviève Conejero, Karine Portet, Fabrice Vaillant, Marvin Soto, Claudie Dhuique-Mayer, Adrien Servent, Démarche intégrée pour l'obtention d'aliments de qualité (UMR QualiSud), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut de Recherche pour le Développement (IRD)-Avignon Université (AU)-Université de La Réunion (UR)-Université de Montpellier (UM)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), Département Performances des systèmes de production et de transformation tropicaux (Cirad-PERSYST), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), Plateforme d'histocytologie et d'imagerie cellulaire végétale (PHIV), Biochimie et Physiologie Moléculaire des Plantes (BPMP), Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Amélioration génétique et adaptation des plantes méditerranéennes et tropicales (UMR AGAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Qualisud - Pôle de La Réunion (Qualisud Réunion ), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut de Recherche pour le Développement (IRD)-Avignon Université (AU)-Université de La Réunion (UR)-Université de Montpellier (UM)-Institut Agro - Montpellier SupAgro, Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Amélioration génétique et adaptation des plantes méditerranéennes et tropicales (UMR AGAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro - Montpellier SupAgro, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro - Montpellier SupAgro, and Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut de Recherche pour le Développement (IRD)-Avignon Université (AU)-Université de La Réunion (UR)-Université de Montpellier (UM)-Institut Agro - Montpellier SupAgro
Subjects: Vacuum, 030309 nutrition & dietetics, Bioconversion, [SDV]Life Sciences [q-bio], Absorption (skin), 7. Clean energy, 03 medical and health sciences, chemistry.chemical_compound, 0404 agricultural biotechnology, Lycopene, medicine, Animals, Vacuum frying, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, Food science, Rats, Wistar, Food microstructure, Q04 - Composition des produits alimentaires, Carotenoid, 2. Zero hunger, chemistry.chemical_classification, 0303 health sciences, medicine.diagnostic_test, Carica, business.industry, food and beverages, Q01 - Sciences et technologies alimentaires - Considérations générales, 04 agricultural and veterinary sciences, Microstructure, Carotenoids, 040401 food science, Unsaturated Oils, Fats, Unsaturated, Rats, Lipid profile, Wistar rats, chemistry, Food processing, Carotenoid bioconversion, business, Food Science
Abstract: International audience; Many studies indicate that food matrix microstructure and type of dietary oil or fat play a key role in carotenoid absorption. Therefore, this work was designed to highlight the relationship between processed food microstructure and carotenoid absorption. This study aimed to evaluate the consumption of a carotenoid-rich fruit snack on lipid profile, glycemia and especially on carotenoid absorption/bioconversion in Wistar rats. Animals were fed with mixtures based on vacuum-fried papaya chips with either soy oil (PC-S) or palm oil (PC-P) during 7 days, receiving 0.29 mg lycopene/kg/day and 0.35 mg total carotenoids/kg/day. Lycopene and retinoids were analyzed in plasma and liver of rats by HPLC-DAD. Results showed that the consumption of mixtures based on papaya chips did not affect the lipid profile or glycemia in rat plasma, regardless the type of oil. Wide-field and confocal microscopy analyses of food matrix helped to understand why lycopene accumulation in the liver was higher (p
Published: 2021

10. Photoperiod-dependent transcriptional modifications in key metabolic pathways in Coffea arabica

Author: Djerrab, Doâa, Bertrand, Benoît, Breitler, Jean-Christophe, Léran, Sophie, Dechamp, Eveline, Campa, Claudine, Barrachina, Célia, Conejero, Geneviève, Etienne, Hervé, Sulpice, Ronan, UMR - Interactions Plantes Microorganismes Environnement (UMR IPME), Institut de Recherche pour le Développement (IRD [France-Sud])-Université de Montpellier (UM)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), Diversité, adaptation, développement des plantes (UMR DIADE), Institut de Recherche pour le Développement (IRD [France-Sud])-Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), Institut de Génomique Fonctionnelle - Montpellier GenomiX (IGF MGX), Institut de Génomique Fonctionnelle (IGF), Université de Montpellier (UM)-Université Montpellier 1 (UM1)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Université Montpellier 2 - Sciences et Techniques (UM2)-Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM)-Université Montpellier 1 (UM1)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Université Montpellier 2 - Sciences et Techniques (UM2)-Centre National de la Recherche Scientifique (CNRS), Biochimie et Physiologie Moléculaire des Plantes (BPMP), Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Plateforme d'histocytologie et d'imagerie cellulaire végétale (PHIV), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Amélioration génétique et adaptation des plantes méditerranéennes et tropicales (UMR AGAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), National University of Ireland [Galway] (NUI Galway), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Université de Montpellier (UM)-Institut de Recherche pour le Développement (IRD [France-Sud]), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud]), Département Systèmes Biologiques (Cirad-BIOS), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), Plant Health Institute of Montpellier (UMR PHIM), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut de Recherche pour le Développement (IRD)-Université de Montpellier (UM)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro - Montpellier SupAgro, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), Institut National de la Santé et de la Recherche Médicale (INSERM)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-BioCampus (BCM), Institut National de la Santé et de la Recherche Médicale (INSERM)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS), Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Amélioration génétique et adaptation des plantes méditerranéennes et tropicales (UMR AGAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro - Montpellier SupAgro, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro - Montpellier SupAgro, and Baracco, Chantal
Subjects: Arn messager, Arabidopsis thaliana, [SDV]Life Sciences [q-bio], Photoperiod, F60 - Physiologie et biochimie végétale, coffee, Arabidopsis, Coffea, Genes, Plant, F30 - Génétique et amélioration des plantes, Gene Expression Regulation, Plant, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, Expression des gènes, [SDV.BV] Life Sciences [q-bio]/Vegetal Biology, Photopériodicité, AcademicSubjects/SCI01210, food and beverages, Coffea arabica, rhythmic genes, Rythme circadien, [SDV] Life Sciences [q-bio], core clock, transcriptome, Metabolic Networks and Pathways, Research Paper
Abstract: Photoperiod length induces in temperate plants major changes in growth rates, morphology and metabolism with, for example, modifications in the partitioning of photosynthates to avoid starvation at the end of long nights. However, this has never been studied for a tropical perennial species adapted to grow in a natural photoperiod close to 12 h/12 h all year long. We grew Coffea arabica L., an understorey perennial evergreen tropical species in its natural 12 h/12 h and in a short 8 h/16 h photoperiod, and we investigated its responses at the physiological, metabolic and transcriptomic levels. The expression pattern of rhythmic genes, including core clock genes, was affected by changes in photoperiod. Overall, we identified 2859 rhythmic genes, of which 89% were also rhythmic in Arabidopsis thaliana L. Under short-days, plant growth was reduced, and leaves were thinner with lower chlorophyll content. In addition, secondary metabolism was also affected with chlorogenic acid and epicatechin levels decreasing, and in agreement, the genes involved in lignin synthesis were overexpressed and those involved in the flavanol pathway were underexpressed. Our results show that the 8 h/16 h photoperiod induces drastic changes in morphology, metabolites and gene expression, and the responses for gene expression are similar to those observed in the temperate annual A. thaliana species. Short photoperiod induces drastic changes in gene expression, metabolites and leaf structure, some of these responses being similar to those observed in A. thaliana.
Published: 2021

11. Transcriptome profiling of laser-captured crown root primordia reveals new pathways activated during early stages of crown root formation in rice

Author: Jérémy Lavarenne, Mathieu Gonin, Antony Champion, Marie Javelle, Hélène Adam, Jacques Rouster, Geneviève Conejéro, Marc Lartaud, Jean-Luc Verdeil, Laurent Laplaze, Christophe Sallaud, Mikael Lucas, Pascal Gantet, Diversité, adaptation, développement des plantes (UMR DIADE), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud]), Limagrain Centre de Recherche – Route d’Ennezat – 63720 Chappes, France, Amélioration génétique et adaptation des plantes méditerranéennes et tropicales (UMR AGAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Plateforme d'histocytologie et d'imagerie cellulaire végétale (PHIV), Biochimie et Physiologie Moléculaire des Plantes (BPMP), Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Amélioration génétique et adaptation des plantes méditerranéennes et tropicales (UMR AGAP), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Département Systèmes Biologiques (Cirad-BIOS), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), CIFRE fellowship from the Association Nationale de la Recherche Technologique, France (2015/0195), CGIAR, Limagrain, ANR-10-LABX-0001,AGRO,Agricultural Sciences for sustainable Development(2010), ANR-17-CE20-0028,MASTEROOT,Détermination de gènes régulateurs maîtres du développement des racines coronaires pour l'ingénierie de la tolérance au déficit hydrique des céréales.(2017), ANR-10-INBS-0004,France-BioImaging,Développment d'une infrastructure française distribuée coordonnée(2010), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro - Montpellier SupAgro, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Amélioration génétique et adaptation des plantes méditerranéennes et tropicales (UMR AGAP), and Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro - Montpellier SupAgro
Subjects: Transcription, Genetic, [SDV]Life Sciences [q-bio], génomique fonctionnelle, Gene Expression, F62 - Physiologie végétale - Croissance et développement, Plant Science, Plant Roots, Biochemistry, F30 - Génétique et amélioration des plantes, Système racinaire, Plant Growth Regulators, Cell Wall, Gene Expression Regulation, Plant, Expression des gènes, Plant Proteins, Plant Anatomy, phytogénétique, Eukaryota, Genomics, Plants, Experimental Organism Systems, Optical Equipment, Medicine, Engineering and Technology, Transcriptome Analysis, Research Article, Science, Arabidopsis Thaliana, Equipment, Oryza sativa, Brassica, Research and Analysis Methods, Model Organisms, stomatognathic system, Plant and Algal Models, DNA-binding proteins, Genetics, Gene Regulation, Grasses, Stade de développement végétal, Lasers, Gene Expression Profiling, Organisms, Biology and Life Sciences, Computational Biology, Proteins, Oryza, Genome Analysis, Regulatory Proteins, Lateral Roots, Animal Studies, Rice, Transcriptome, Transcription Factors
Abstract: International audience; Crown roots constitute the main part of the rice root system. Several key genes involved in crown root initiation and development have been identified by functional genomics approaches. Nevertheless, these approaches are impaired by functional redundancy and mutant lethality. To overcome these limitations, organ targeted transcriptome analysis can help to identify genes involved in crown root formation and early development. In this study, we generated an atlas of genes expressed in developing crown root primordia in comparison with adjacent stem cortical tissue at three different developmental stages before emergence, using laser capture microdissection. We identified 3975 genes differentially expressed in crown root primordia. About 30% of them were expressed at the three developmental stages, whereas 10.5%, 19.5% and 12.8% were specifically expressed at the early, intermediate and late stages, respectively. Sorting them by functional ontology highlighted an active transcriptional switch during the process of crown root primordia formation. Crossanalysis with other rice root development-related datasets revealed genes encoding transcription factors, chromatin remodeling factors, peptide growth factors, and cell wall remodeling enzymes that are likely to play a key role during crown root primordia formation. This atlas constitutes an open primary data resource for further studies on the regulation of crown root initiation and development.
Published: 2020

12. FT-GPI, a highly sensitive and accurate predictor of GPI-anchored proteins, reveals the composition and evolution of the GPI proteome in Plasmodium species

Author: Lena M. Sauer, Rodrigo Canovas, Daniel Roche, Hosam Shams-Eldin, Patrice Ravel, Jacques Colinge, Ralph T. Schwarz, Choukri Ben Mamoun, Eric Rivals, Emmanuel Cornillot, Institut de Biologie Computationnelle (IBC), Institut National de Recherche en Informatique et en Automatique (Inria)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Institute for Virology [Marburg], Philipps Universität Marburg = Philipps University of Marburg, Méthodes et Algorithmes pour la Bioinformatique (MAB), Laboratoire d'Informatique de Robotique et de Microélectronique de Montpellier (LIRMM), Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM), Institut de Recherche en Cancérologie de Montpellier (IRCM - U1194 Inserm - UM), CRLCC Val d'Aurelle - Paul Lamarque-Institut National de la Santé et de la Recherche Médicale (INSERM)-Université de Montpellier (UM), and Yale School of Medicine [New Haven, Connecticut] (YSM)
Subjects: GPI-proteome, GPI-anchored protein, Infectious Diseases, FT-GPI, [SDV]Life Sciences [q-bio], Plasmodium falciparum, P. vivax, Parasitology, [SDV.BBM]Life Sciences [q-bio]/Biochemistry, Molecular Biology
Abstract: Background Protozoan parasites are known to attach specific and diverse group of proteins to their plasma membrane via a GPI anchor. In malaria parasites, GPI-anchored proteins (GPI-APs) have been shown to play an important role in host–pathogen interactions and a key function in host cell invasion and immune evasion. Because of their immunogenic properties, some of these proteins have been considered as malaria vaccine candidates. However, identification of all possible GPI-APs encoded by these parasites remains challenging due to their sequence diversity and limitations of the tools used for their characterization. Methods The FT-GPI software was developed to detect GPI-APs based on the presence of a hydrophobic helix at both ends of the premature peptide. FT-GPI was implemented in C ++and applied to study the GPI-proteome of 46 isolates of the order Haemosporida. Using the GPI proteome of Plasmodium falciparum strain 3D7 and Plasmodium vivax strain Sal-1, a heuristic method was defined to select the most sensitive and specific FT-GPI software parameters. Results FT-GPI enabled revision of the GPI-proteome of P. falciparum and P. vivax, including the identification of novel GPI-APs. Orthology- and synteny-based analyses showed that 19 of the 37 GPI-APs found in the order Haemosporida are conserved among Plasmodium species. Our analyses suggest that gene duplication and deletion events may have contributed significantly to the evolution of the GPI proteome, and its composition correlates with speciation. Conclusion FT-GPI-based prediction is a useful tool for mining GPI-APs and gaining further insights into their evolution and sequence diversity. This resource may also help identify new protein candidates for the development of vaccines for malaria and other parasitic diseases.
Published: 2023

13. Preventive nutritional supplementation with furan fatty acid in a DIO mouse model increases muscle mass and reduces metabolic disorders

Author: Laetitia Dore, Erwann Durand, Béatrice Bonafos, Jatuporn Chaiyut, Laurent Vaysse, Siriluck Liengprayoon, Sylvie Gaillet, Laurence Pessemesse, Karen Lambert, Christelle Bertrand-Gaday, Charles Coudray, Ariane Sultan, François Casas, Christine Feillet-Coudray, Dynamique Musculaire et Métabolisme (DMEM), Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Démarche intégrée pour l'obtention d'aliments de qualité (UMR QualiSud), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut de Recherche pour le Développement (IRD)-Avignon Université (AU)-Université de La Réunion (UR)-Institut Agro Montpellier, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Université de Montpellier (UM), Département Performances des systèmes de production et de transformation tropicaux (Cirad-PERSYST), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), Kasetsart University (KU), BioWooEB (UPR BioWooEB), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Université de Montpellier (UM), Physiologie & médecine expérimentale du Cœur et des Muscles [U 1046] (PhyMedExp), Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM), Centre Hospitalier Régional Universitaire [Montpellier] (CHRU Montpellier), and This work was supported by the French National Research Institute for Agriculture, Food and Environment (INRAE), by the French Lipid Nutrition Group and by the by the Key Initiative Food & Health of MUSE (Montpellier University of Excellence). Laetitia Dore was funded by Agence Régionale de Santé Occitanie.
Subjects: Pharmacology, Liver, [SDV]Life Sciences [q-bio], Furan fatty acids, Skeletal muscle, General Medicine, Obesity, Insulin sensitivity, Mitochondria
Abstract: International audience; The increase in obesity has become a major global health problem and is associated with numerous metabolic dysfunctions. Furan fatty acids (FuFAs) are minor lipids present in our diet. Recently we showed that FuFA-F2 extracted from Hevea brasiliensis latex stimulates muscle anabolism in mice in vitro and in vivo, mimicking in part physical activity. While skeletal muscle is essential for energy metabolism and is the predominant site of insulin-mediated glucose uptake in the post prandial state, our results suggested that FuFA-F2 could have favorable effects against obesity. The aim of this work was therefore to study whether a preventive nutritional supplementation with FuFA-F2 (40 mg or 110 mg/day/kg of body weight) in a diet-induced obesity (DIO) mouse model may have beneficial effects against obesity and liver and skeletal muscle metabolic dysfunction. We showed that 12 weeks of FuFA-F2 supplementation in DIO mice decreased fat mass, increased lean mass and restored normal energy expenditure. In addition, we found that FuFA-F2 improved insulin sensitivity. We revealed that FuFA-F2 increased muscle mass but had no effect on mitochondrial function and oxidative stress in skeletal muscle. Furthermore, we observed that FuFA-F2 supplementation reduced liver steatosis without impact on mitochondrial function and oxidative stress in liver. Our findings demonstrated for the first time that a preventive nutritional supplementation with a furan fatty acid in DIO mice reduced metabolic disorders and was able to mimic partly the positive effects of physical activity. This study highlights that nutritional FuFA-F2 supplementation could be an effective approach to treat obesity and metabolic syndrome.
Published: 2023

14. The GeoLifeCLEF 2023 Dataset to evaluate plant species distribution models at high spatial resolution across Europe

Author: Botella, Christophe, Benjamin, Deneu, Diego Gonzalez, Marcos, Maximilien, Servajean, Théo, Larcher, Joaquim, Estopinan, César, Leblanc, Bonnet, Pierre, Joly, Alexis, Scientific Data Management (ZENITH), Inria Sophia Antipolis - Méditerranée (CRISAM), Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria)-Laboratoire d'Informatique de Robotique et de Microélectronique de Montpellier (LIRMM), Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM), ADVanced Analytics for data SciencE (ADVANSE), Laboratoire d'Informatique de Robotique et de Microélectronique de Montpellier (LIRMM), Université Paul-Valéry - Montpellier 3 (UPVM), Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Département Systèmes Biologiques (Cirad-BIOS), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), European Project: 101060693,GUARDEN, and European Project: 101060639,MAMBO
Subjects: Europe, [SDV.EE]Life Sciences [q-bio]/Ecology, environment, Presence-only, [STAT.ML]Statistics [stat]/Machine Learning [stat.ML], SDM, Deep SDM, prediction, [SDV.BID]Life Sciences [q-bio]/Biodiversity, Remote sensing, Presence-absence, Species distribution, species assemblages, biodiversity
Abstract: The full dataset is freely available at the link below (perennial repository) for academic use or other non-commercial use: https://lab.plantnet.org/seafile/d/936fe4298a5a4f4c8dbd/; The difficulty to measure or predict species community composition at fine spatio-temporal resolution and over large spatial scales severely hampers our ability to understand species assemblages and take appropriate conservation measures. Despite the progress in species distribution modeling (SDM) over the past decades, SDM are just beginning to integrate high resolution remote sensing data and their predictions are still entailed by the many biases and heterogeneous quality of the available biodiversity observations, most often opportunistic presence only data. We designed a European scale dataset covering around 10K plant species to calibrate and evaluate SDM predictions of species composition in space and time at high spatial resolution (~10m), and study their spatial transferability. For model training, we extracted and harmonized 5 million heterogeneous presence-only observations from selected GBIF datasets and 5 thousand exhaustive presence-absence surveys both sampled during the 2017-2021. We associated them to various environmental rasters classically used in SDMs, as well as to 10x10m resolution RGB and Near-Infra-Red satellite images and 20 years-time series of climatic variables and satellite point values. The evaluation dataset is based on 20K standardized presence-absence surveys separated from the training set with a spatial block hold out procedure. The GeoLifeCLEF 2023 dataset is open access and the first benchmark for researchers aiming to improve the prediction of plant species composition at a very fine spatial grain and at continental scale. It is also a space to explore new ways of combining massive and diverse species observations with environmental information at various scales. Innovative AI-based approaches, in particular, should be among the most interesting methods to experiment with on the GeoLifeCLEF 2023 dataset.
Published: 2023

15. The GeoLifeCLEF 2023 Dataset to evaluate plant species distribution models at high spatial resolution across Europe

Author: Botella, Christophe, Deneu, Benjamin, Diego Gonzalez, Marcos, Servajean, Maximilien, Larcher, Théo, Estopinan, Joaquim, Leblanc, César, Bonnet, Pierre, Joly, Alexis, Scientific Data Management (ZENITH), Inria Sophia Antipolis - Méditerranée (CRISAM), Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria)-Laboratoire d'Informatique de Robotique et de Microélectronique de Montpellier (LIRMM), Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM), ADVanced Analytics for data SciencE (ADVANSE), Laboratoire d'Informatique de Robotique et de Microélectronique de Montpellier (LIRMM), Université Paul-Valéry - Montpellier 3 (UPVM), Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Département Systèmes Biologiques (Cirad-BIOS), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), European Project: 101060693,GUARDEN, and European Project: 101060639,MAMBO
Subjects: Europe, [SDV.EE]Life Sciences [q-bio]/Ecology, environment, Presence-only, [STAT.ML]Statistics [stat]/Machine Learning [stat.ML], SDM, Deep SDM, prediction, [SDV.BID]Life Sciences [q-bio]/Biodiversity, Remote sensing, Presence-absence, Species distribution, species assemblages, biodiversity
Abstract: The full dataset is freely available at the link below (perennial repository) for academic use or other non-commercial use: https://lab.plantnet.org/seafile/d/936fe4298a5a4f4c8dbd/; The difficulty to measure or predict species community composition at fine spatio-temporal resolution and over large spatial scales severely hampers our ability to understand species assemblages and take appropriate conservation measures. Despite the progress in species distribution modeling (SDM) over the past decades, SDM are just beginning to integrate high resolution remote sensing data and their predictions are still entailed by the many biases and heterogeneous quality of the available biodiversity observations, most often opportunistic presence only data. We designed a European scale dataset covering around 10K plant species to calibrate and evaluate SDM predictions of species composition in space and time at high spatial resolution (~10m), and study their spatial transferability. For model training, we extracted and harmonized 5 million heterogeneous presence-only observations from selected GBIF datasets and 5 thousand exhaustive presence-absence surveys both sampled during the 2017-2021. We associated them to various environmental rasters classically used in SDMs, as well as to 10x10m resolution RGB and Near-Infra-Red satellite images and 20 years-time series of climatic variables and satellite point values. The evaluation dataset is based on 20K standardized presence-absence surveys separated from the training set with a spatial block hold out procedure. The GeoLifeCLEF 2023 dataset is open access and the first benchmark for researchers aiming to improve the prediction of plant species composition at a very fine spatial grain and at continental scale. It is also a space to explore new ways of combining massive and diverse species observations with environmental information at various scales. Innovative AI-based approaches, in particular, should be among the most interesting methods to experiment with on the GeoLifeCLEF 2023 dataset.
Published: 2023

16. Spatio-temporal analysis of strawberry architecture: insights into the control of branching and inflorescence complexity

Author: Marc Labadie, Karine Guy, Marie-Noëlle Demené, Yves Caraglio, Gaetan Heidsieck, Amelia Gaston, Christophe Rothan, Yann Guédon, Christophe Pradal, Béatrice Denoyes, Amélioration génétique et adaptation des plantes méditerranéennes et tropicales (UMR AGAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Montpellier, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Université de Montpellier (UM), Biologie du fruit et pathologie (BFP), Université de Bordeaux (UB)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Invenio, Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Département Systèmes Biologiques (Cirad-BIOS), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), Scientific Data Management (ZENITH), Inria Sophia Antipolis - Méditerranée (CRISAM), Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria)-Laboratoire d'Informatique de Robotique et de Microélectronique de Montpellier (LIRMM), and Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM)
Subjects: plant architecture, Physiology, OpenAlea, [SDV]Life Sciences [q-bio], branching, multiscale tree graph, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, Plant Science, Fragaria × ananassa, hidden hybrid Markov/semi-Markov chain
Abstract: Plant architecture plays a major role in flowering and therefore in crop yield. Attempts to visualize and analyse strawberry plant architecture have been few to date. Here, we developed open-source software combining two- and three-dimensional representations of plant development over time along with statistical methods to explore the variability in spatio-temporal development of plant architecture in cultivated strawberry. We applied this software to six seasonal strawberry varieties whose plants were exhaustively described monthly at the node scale. Results showed that the architectural pattern of the strawberry plant is characterized by a decrease of the module complexity between the zeroth-order module (primary crown) and higher-order modules (lateral branch crowns and extension crowns). Furthermore, for each variety, we could identify traits with a central role in determining yield, such as date of appearance and number of branches. By modeling the spatial organization of axillary meristem fate on the zeroth-order module using a hidden hybrid Markov/semi-Markov mathematical model, we further identified three zones with different probabilities of production of branch crowns, dormant buds, or stolons. This open-source software will be of value to the scientific community and breeders in studying the influence of environmental and genetic cues on strawberry architecture and yield.
Published: 2023

17. The ecological causes of functional distinctiveness in communities

Author: Munoz, François, Klausmeier, Christopher A, Gaüzère, Pierre, Kandlikar, Gaurav, Litchman, Elena, Mouquet, Nicolas, Ostling, Annette, Thuiller, Wilfried, Algar, Adam C, Auber, Arnaud, Cadotte, Marc W, Delalandre, Léo, Denelle, Pierre, Enquist, Brian J, Fortunel, Claire, Grenié, Matthias, Loiseau, Nicolas, Mahaut, Lucie, Maire, Anthony, Mouillot, David, Pimiento, Catalina, Violle, Cyrille, Kraft, Nathan J B, Laboratoire Interdisciplinaire de Physique [Saint Martin d’Hères] (LIPhy ), Centre National de la Recherche Scientifique (CNRS)-Université Grenoble Alpes (UGA), Michigan State University [East Lansing], Michigan State University System, Laboratoire d'Ecologie Alpine (LECA ), Université Savoie Mont Blanc (USMB [Université de Savoie] [Université de Chambéry])-Centre National de la Recherche Scientifique (CNRS)-Université Grenoble Alpes (UGA), University of Missouri [Columbia] (Mizzou), University of Missouri System, Laboratoire Service d' Experimentations Aquacoles [Palavas les Flots] (LSEA MARBEC), MARine Biodiversity Exploitation and Conservation (UMR MARBEC), Institut de Recherche pour le Développement (IRD)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM)-Institut de Recherche pour le Développement (IRD)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM), University of Texas at Austin [Austin], Laboratoire Environnement de Conception & Architecture (LECA), Université Paris-Saclay-Département Systèmes et Circuits Intégrés Numériques (DSCIN), Laboratoire d'Intégration des Systèmes et des Technologies (LIST (CEA)), Direction de Recherche Technologique (CEA) (DRT (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Direction de Recherche Technologique (CEA) (DRT (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Laboratoire d'Intégration des Systèmes et des Technologies (LIST (CEA)), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA), Lakehead University, Laboratoire Ressources Halieutiques (LRH), Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER), University of Toronto at Scarborough, Centre d’Ecologie Fonctionnelle et Evolutive (CEFE), Université Paul-Valéry - Montpellier 3 (UPVM)-École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Montpellier, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Université de Montpellier (UM), Georg-August-University = Georg-August-Universität Göttingen, University of Arizona, Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), German Centre for Integrative Biodiversity Research (iDiv), Centre de Synthèse et d’Analyse sur la Biodiversité (CESAB), Fondation pour la recherche sur la Biodiversité (FRB), Laboratoire National d’Hydraulique et Environnement (EDF R&D LNHE), EDF R&D (EDF R&D), EDF (EDF)-EDF (EDF), Universität Zürich [Zürich] = University of Zurich (UZH), University of California (UC), University of Zurich, and Munoz, François
Subjects: Ecology, source, Evolution, Community assembly, Fitness landscape, 10125 Paleontological Institute and Museum, 1105 Ecology, Evolution, Behavior and Systematics, 560 Fossils & prehistoric life, Behavior and Systematics, [SDE]Environmental Sciences, Source-sink dynamics, sink dynamics, Coexistence, Ecological interactions, Functional traits
Abstract: International audience; Recent work has shown that evaluating functional trait distinctiveness, the average trait distance of a species to other species in a community offers promising insights into biodiversity dynamics and ecosystem functioning. However, the ecological mechanisms underlying the emergence and persistence of functionally distinct species are poorly understood. Here, we address the issue by considering a heterogeneous fitness landscape whereby functional dimensions encompass peaks representing trait combinations yielding positive population growth rates in a community. We identify four ecological cases contributing to the emergence and persistence of functionally distinct species. First, environmental heterogeneity or alternative phenotypic designs can drive positive population growth of functionally distinct species. Second, sink populations with negative population growth can deviate from local fitness peaks and be functionally distinct. Third, species found at the margin of the fitness landscape can persist but be functionally distinct. Fourth, biotic interactions (positive or negative) can dynamically alter the fitness landscape. We offer examples of these four cases and guidelines to distinguish between them. In addition to these deterministic processes, we explore how stochastic dispersal limitation can yield functional distinctiveness. Our framework offers a novel perspective on the relationship between fitness landscape heterogeneity and the functional composition of ecological assemblages.
Published: 2023

18. The biogeography of Gabonese savannas: Evidence from termite community richness and composition

Author: Evouna Ondo, Fidèle, Jeffery, Kathryn, Whytock, Robin, Abernethy, Katharine, Couteron, Pierre, Ostle, Nicolas, Eggleton, Paul, Griffin, Claire, Koumba Pambo, Aurelie‐flore, Ngomanda, Alfred, Edzang Ndong, Josué, Parr, Catherine, Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Agence Nationale des Parcs Nationaux du Gabon (ANPN), University of Stirling, Lancaster University, The Natural History Museum [London] (NHM), Centre national de la recherche scientifique et technologique (CENAREST), and University of Liverpool
Subjects: Central Africa, Biogeography, Savanna, [SDE]Environmental Sciences, DNA barcoding, Forest, Gabon, Fire, Termites
Abstract: International audience; Aim: The mosaic of savannas that persists in the forest-dominant Congo Basin is thought to be palaeoclimatic relics, but past biogeographical processes that have formed and maintained these systems are poorly understood. Here, we explored the post-Pleistocene biogeography of Gabon's savannas using termites as biological indicators to understand historical and mechanistic factors influencing present-day termite communities in the country's extant savannas. Location Gabon, Central Africa. Taxon Blattodea: Termitoidae. Methods Using standardised transect methods, we sampled termite communities in four disjunct modern savanna areas of Gabon: the centre (Lopé), the southeast (Batéké) and the south (Mayombe North and South). Termites at Lopé were collected in three habitats (annually burned savannas, savannas with a depressed fire regime and forest). We used DNA barcoding of the COII region to identify termite species and compared abundance, species richness and community composition across areas and habitats. Results Community composition differed greatly between Lopé and both Batéké and Mayombe savannas with Lopé being exceptionally depauperate and lacking characteristic savanna species. Within Lopé, termite abundance and diversity was highest in forests and lowest in annually burned savannas, with a gradual change in species composition across the forest–savanna gradient associated with fire history. Main Conclusions The absence of savanna typical species in Lopé savannas challenges current assumptions that these savannas were linked to the south/southeastern savannas during the Pleistocene and suggests a different evolutionary history. Lopé savannas may instead have opened as an isolated grassland and never have been contiguous with neighbouring savannas, or were isolated soon after forest expansion began and have now lost savanna-typical species. Furthermore, the patterns of termite community composition in fire suppressed savannas support a hypothesis of rapid change driven by fire frequency where either fire suppression or infrequent burning over 23 years has meant savannas have become ecologically much more forest-like.
Published: 2023

19. Origine et évolution des protéines RhoGAP associées aux vésicules chez deux guêpes parasitoïdes non apparentées

Author: Colinet, Dominique, Cavigliasso, Fanny, Leobold, Matthieu, Pichon, Appoline, Urbach, Serge, Cazes, Dominique, Poullet, Marine, Belghazi, Maya, Volkoff, Anne-Nathalie, Drezen, Jean-Michel, Gatti, Jean-Luc, Poirie, Marylene, Institut Sophia Agrobiotech (ISA), Université Nice Sophia Antipolis (1965 - 2019) (UNS), COMUE Université Côte d'Azur (2015-2019) (COMUE UCA)-COMUE Université Côte d'Azur (2015-2019) (COMUE UCA)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université Côte d'Azur (UCA), Institut de recherche sur la biologie de l'insecte UMR7261 (IRBI), Université de Tours (UT)-Centre National de la Recherche Scientifique (CNRS), Diversité, Génomes & Interactions Microorganismes - Insectes [Montpellier] (DGIMI), Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Institut de Microbiologie de la Méditerranée (IMM), Aix Marseille Université (AMU)-Centre National de la Recherche Scientifique (CNRS), Department of Plant Health and Environment from INRAE, and ANR-11-LABX-0028,SIGNALIFE,Réseau d'Innovation sur les Voies de Signalisation en Sciences de la Vie(2011)
Subjects: RhoGAP multigene family, positive selection, [SDV]Life Sciences [q-bio], [SDV.BID.EVO]Life Sciences [q-bio]/Biodiversity/Populations and Evolution [q-bio.PE], evolution, gene duplication, venom and other secretions, parasitoids
Abstract: Animal venoms and other protein-based secretions that perform a variety of functions, from predation to defense, are highly complex cocktails of bioactive compounds. Gene duplication, accompanied by modification of the expression and/or function of one of the duplicates under the action of positive selection, followed by further duplication to produce multigene families of toxins is a well-documented process in venomous animals. This evolutionary model has been less described in parasitoid wasps, which use maternal fluids, including venom, to protect their eggs from encapsulation by the host immune system. Here, we evidence the convergent recruitment and accelerated evolution of two multigene families of RhoGAPs presumably involved in virulence in two unrelated parasitoid wasp species, Leptopilina boulardi (Figitidae) and Venturia canescens (Icheumonidae). In both species, these RhoGAPs are associated with vesicles that act as transport systems to deliver virulence factors, but are produced in different tissues: the venom gland in Leptopilina sp. and the ovarian calyx in V. canescens. We show that the gene encoding the cellular RacGAP1 is at the origin of the virulent RhoGAP families found in Leptopilina sp. and V. canescens. We also show that both RhoGAP families have undergone evolution under positive selection and that almost all of these RhoGAPs lost their GAP activity and GTPase binding ability due to mutations in key amino acids. These results suggest an accelerated evolution and functional diversification of these vesicle-associated RhoGAPs in the two phylogenetically distant parasitoid species. The potential new function(s) and the exact mechanism of action of these proteins in host cells remain to be elucidated.; Les venins d'animaux et d'autres sécrétions à base de protéines qui remplissent diverses fonctions, de la prédation à la défense, sont des cocktails très complexes de composés bioactifs. La duplication des gènes, accompagnée d'une modification de l'expression et/ou de la fonction de l'une des duplications sous l'action de la sélection positive, suivie d'une nouvelle duplication pour produire des familles multigéniques de toxines, est un processus bien documenté chez les animaux venimeux. Ce modèle évolutif a été moins décrit chez les guêpes parasitoïdes, qui utilisent les fluides maternels, y compris le venin, pour protéger leurs œufs de l'encapsulation par le système immunitaire de l'hôte. Nous démontrons ici le recrutement convergent et l'évolution accélérée de deux familles multigéniques de RhoGAPs probablement impliquées dans la virulence chez deux espèces de guêpes parasitoïdes non apparentées, Leptopilina boulardi (Figitidae) et Venturia canescens (Icheumonidae). Chez les deux espèces, ces RhoGAP sont associées à des vésicules qui agissent comme des systèmes de transport pour délivrer les facteurs de virulence, mais elles sont produites dans des tissus différents : la glande à venin chez Leptopilina sp. et le calice ovarien chez V. canescens. Nous montrons que le gène codant pour la RacGAP1 cellulaire est à l'origine des familles de RhoGAP virulentes trouvées chez Leptopilina sp. et V. canescens. Nous montrons également que les deux familles RhoGAP ont subi une évolution sous sélection positive et que presque toutes ces RhoGAP ont perdu leur activité GAP et leur capacité de liaison à la GTPase en raison de mutations dans des acides aminés clés. Ces résultats suggèrent une évolution accélérée et une diversification fonctionnelle de ces RhoGAP associées aux vésicules chez les deux espèces de parasitoïdes phylogénétiquement éloignées. Les nouvelles fonctions potentielles et le mécanisme d'action exact de ces protéines dans les cellules hôtes restent à élucider.
Published: 2023

20. Why woody plant modularity through time and space must be integrated in fire research?

Author: Marco Antonio Chiminazzo, Tristan Charles-Dominique, Davi Rodrigo Rossatto, Aline Bertolosi Bombo, Alessandra Fidelis, Universidade Estadual Paulista Júlio de Mesquita Filho = São Paulo State University (UNESP), Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), and Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM)
Subjects: Miconia albicans, Shrub, Plant architecture, Savanna, [SDE]Environmental Sciences, Grassy biomes, Resprouting, Climate change, Plant Science, Growth form, Fire
Abstract: Different ecosystems evolved and are maintained by fire, with their vegetation hosting species with a wide diversity of persistence strategies allowing them to insulate their body and resprout new branches after fire disturbance. Changes in fire regime are predicted due to climate change, either by promoting more frequent and/or severe fires or by reducing the number fire events due to the limitation of fuel load. Predicting the future of fire-driven ecosystems is a complex task as species’ survival depends on many factors that vary in space and time. Since plants are constantly experiencing new environments as they grow through meristem development, woody plant modularity, modules morpho-physiological aspects and their integration should be considered when investigating species strategies in fire-prone ecosystems: according to their position and their tissue composition, plants’ modules experience fire differently and will contribute differently to other modules and the whole plant survival, with consequences cascading over the overall vegetation structure. Growth modules may hold the key to understanding how fast plants can get protected from fire, ultimately helping us to predict which species will persist across changing fire regimes. We present an empirical example showing how different fire-return intervals translate into distinct pressures on the timing, protection, and location of modules and discuss how these can translate into modifications in the vegetation structure due to climate change.
Published: 2023

21. Services provided by multifunctional agroecosystems : Questions, obstacles and solutions

Author: Alexia Stokes, Géraldine Bocquého, Pascal Carrere, Raphaël Conde Salazar, Marc Deconchat, Léo Garcia, Antoine Gardarin, Christian Gary, Cédric Gaucherel, Mamadou Gueye, Mickael Hedde, Françoise Lescourret, Zhun Mao, Nicolas Quérou, Gabrielle Rudi, Jean-Michel Salles, Raphael Soubeyran, Julie Subervie, Aude Vialatte, Fabrice Vinatier, Marielle Thomas, Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Bureau d'Économie Théorique et Appliquée (BETA), AgroParisTech-Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Université de Lorraine (UL)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Unité Mixte de Recherche sur l'Ecosystème Prairial - UMR (UREP), VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Dynamiques et écologie des paysages agriforestiers (DYNAFOR), École nationale supérieure agronomique de Toulouse (ENSAT), Institut National Polytechnique (Toulouse) (Toulouse INP), Université de Toulouse (UT)-Université de Toulouse (UT)-Institut National Polytechnique (Toulouse) (Toulouse INP), Université de Toulouse (UT)-Université de Toulouse (UT)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Agrosystèmes Biodiversifiés (UMR ABSys), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre International de Hautes Etudes Agronomiques Méditerranéennes - Institut Agronomique Méditerranéen de Montpellier (CIHEAM-IAMM), Centre International de Hautes Études Agronomiques Méditerranéennes (CIHEAM)-Centre International de Hautes Études Agronomiques Méditerranéennes (CIHEAM)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Montpellier, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), Agronomie, AgroParisTech-Université Paris-Saclay-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Laboratoire d'Economie de Dauphine (LEDa), Institut de Recherche pour le Développement (IRD)-Université Paris Dauphine-PSL, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Centre National de la Recherche Scientifique (CNRS), Centre de Géopolitique de l’Energie et des Matières Premières (LEDA-CGEMP), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD)-Université Paris Dauphine-PSL, Ecologie fonctionnelle et biogéochimie des sols et des agro-écosystèmes (UMR Eco&Sols), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut de Recherche pour le Développement (IRD)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Montpellier, Unité de recherche Plantes et Systèmes de Culture Horticoles (PSH), Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Centre d'Economie de l'Environnement - Montpellier (CEE-M), Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Montpellier, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Université de Montpellier (UM), Gestion de l'Eau, Acteurs, Usages (UMR G-EAU), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Bureau de Recherches Géologiques et Minières (BRGM) (BRGM)-Institut de Recherche pour le Développement (IRD)-AgroParisTech-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Montpellier, Laboratoire d'étude des Interactions Sol - Agrosystème - Hydrosystème (UMR LISAH), Institut de Recherche pour le Développement (IRD)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Montpellier, Unité de Recherches Animal et Fonctionnalités des Produits Animaux (URAFPA), Université de Lorraine (UL)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), We acknowledge the funding and support provided by the INRAE Metaprogram ‘Ecosystem Services’, (https://colloque.inrae.fr/metaprograms-workshops_eng/Metaprograms/EcoServ). In particular, we thank Dr Guy Richard (INRAE, France) for his dynamic leadership of this research program. AS, MZ and CG received funding from the EU Horizon Europe Programme under grant agreement number 101059498 (eco2adapt: Ecosystem-based Adaptation and Changemaking to Shape, Protect and Maintain the Resilience of Tomorrow’s Forests)., and European Project: 101059498 ,eco2adapt
Subjects: Environmental Engineering, Social-ecological system, Economics, Ecosystem services, Biodiversity, Management, Monitoring, Policy and Law, Farm, [SHS.ECO]Humanities and Social Sciences/Economics and Finance, [SDE.ES]Environmental Sciences/Environmental and Society, Nature and Landscape Conservation, Model, [SHS]Humanities and Social Sciences
Abstract: International audience; Highlights: • We investigated multifunctionality and ecosystem services in agroecosystems. • 18 research questions, obstacles and solutions were identified. • Future research must integrate knowledge from different sectors and communities. • Biodiversity is a key factor to explore and incorporate into modelling approaches. • Promoting dialogue, standardization and data-sharing would enhance progress.Abstract:Agroecosystems are facing new challenges in the context of a growing and increasingly interconnected human population, and a paradigm shift is needed to successfully address the many complex questions that these challenges will generate. The transition to providing multiple services within an agroecosystem is a starting point for heightened multifunctionality, however, there is still hesitation among stakeholders about moving towards multi-service systems, largely because of the lack of knowledge linking productivity and multifunctionality. We reason that much of this reticence could be overcome through a better understanding of stakeholder requirements and innovative transdisciplinary research extended in the dimensions of time and space. We assembled experts in France to identify priority research questions for co-constructing projects with stakeholders. We identified 18 key questions, as well as the obstacles that hinder their resolution and propose potential solutions for tackling these obstacles. We illustrate that research into agroecosystem multifunctionality and service production must be a hugely collaborative effort and needs to integrate knowledge from different sectors and communities. Promoting dialogue, standardization and data-sharing would enhance transdisciplinary progress. Biodiversity is highlighted as a key factor to explore and incorporate into modelling approaches, but major advances must be made in the understanding of dynamic changes in the biodiversity-function-service nexus across landscapes. Resolving these research questions will allow us to translate knowledge into decision objectives, identify adaptation and tipping points in agroecosystems and develop social-ecological economic pathways that are adaptive over time.
Published: 2023

22. Weak phylogenetic and habitat effects on root trait variation of 218 Neotropical tree species

Author: Monique Weemstra, Oscar J. Valverde-Barrantes, Claire Fortunel, Erick M. Oblitas Mendoza, Eduardo M. B. Prata, Magno Vásquez Pilco, Alberto Vicentini, Jason Vleminckx, Christopher Baraloto, Florida International University [Miami] (FIU), Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), National Institute for Amazonian Research, Instituto Nacional de Pesquisas da Amazônia (INPA), Universidad Nacional de la Amazonía Peruana [Loreto, Perou] (UNAP), Université libre de Bruxelles (ULB), ANR-10-LABX-0025,CEBA,CEnter of the study of Biodiversity in Amazonia(2010), and ANR-13-BSV7-0009,NEBEDIV,Le rôle des ennemis naturels dans la diversité béta des arbres tropicaux(2013)
Subjects: Amazon forest functional diversity phylogeny belowground traits root economics space tropical forests, Global and Planetary Change, Amazon forest, Ecology, Tropical forests, [SDE]Environmental Sciences, Root economics space, Forestry, Environmental Science (miscellaneous), Functional diversity, Phylogeny, Nature and Landscape Conservation, Belowground traits
Abstract: IntroductionTropical forests harbor a large diversity of closely related tree species that can thrive across habitats. This biodiversity has been found to correspond to large functional diversity in aboveground traits, and likely also relates to belowground trait variation. Globally, root trait (co-)variation is driven by different belowground resource strategies of species, environmental variation, and phylogeny; however, these patterns mostly reflect observations from temperate biomes and remain unconfirmed in tropical trees. We examine phylogenetic and environmental effects on root trait (co-)variation of trees across habitats in an Amazonian rainforest.MethodsRoots of 218 tree species from ten dominant families were sampled across three major habitats near Manaus, Brazil. We quantified five morphological and architectural root traits to (i) investigate how they reflected different resource strategies across species, (ii) compare them between families and superorders to test phylogenetic effects, and (iii) compare them between habitats to determine environmental effects on root trait expressions and variability.ResultsRoot traits discriminated species along a tradeoff between root diameter and root branching and, secondly, due to variation in root tissue density. Our results further show weak phylogenetic effects on tropical tree root variation, for example, families from the same superorder showed large divergence in their root traits, while those from different superorders often overlapped in their root morphology and architecture. Root traits differed significantly between habitats but habitat type had only little effect on overall root trait variation.DiscussionOur work suggests that the dimensions and drivers that underlie (co-)variation in tropical root traits may differ from global patterns defined by mostly temperate datasets. Due to (a)biotic environmental differences, different root trait dimensions may underlie the belowground functional diversity in (Neo)tropical forests, and we found little evidence for the strong phylogenetic conservatism observed in root traits in temperate biomes. We highlight important avenues for future research on tropical roots in order to determine the degree of, and shifts in functional diversity belowground as communities and environments change in tropical forests.
Published: 2023

23. Plants stand still but hide: Imperfect and heterogeneous detection is the rule when counting plants

Author: Jan Perret, Aurélien Besnard, Anne Charpentier, Guillaume Papuga, Centre d’Ecologie Fonctionnelle et Evolutive (CEFE), Université Paul-Valéry - Montpellier 3 (UPVM)-École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Montpellier, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Université de Montpellier (UM), Université de Montpellier (UM), Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), and Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM)
Subjects: Detectability, Ecology, Observer effect, Plant survey, Field methods, Plant Science, Conservation, Population monitoring, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, Ecology, Evolution, Behavior and Systematics, Demography, N-mixture
Abstract: The estimation of population size and its variation across space and time largely relies on counts of individuals, generally carried out within spatial units such as quadrats or sites. Missing individuals during counting (i.e. imperfect detection) results in biased estimates of population size and trends. Imperfect detection has been shown to be the rule in animal studies, and most studies now correct for this bias by estimating detection probability. Yet this correction remains exceptional in plant studies, suggesting that most plant ecologists implicitly assume that all individuals are always detected.To assess if this assumption is valid, we conducted a field experiment to estimate individual detection probability in plant counts conducted in 1×1 m quadrats. We selected 30 herbaceous plant species along a gradient of conspicuousness at 24 sites along a gradient of habitat closure, and asked groups of observers to count individuals in 10 quadrats using three counting methods requiring progressively increasing times to complete (quick count, unlimited count and cell count). In total, 158 participants took part in the experiment, allowing an analysis of the results of 5,024 counts.Over all field sessions, no observer succeeded in detecting all the individuals in the 10 quadrats. The mean detection rate was 0.44 (ranging from 0.11 to 0.82) for the quick count, 0.59 for the unlimited count (range 0.18–0.87) and 0.74 for the cell count (range 0.46-0.94).Detection probability increased with the conspicuousness of the target species and decreased with the density of individuals and habitat closure. The observer’s experience in botany had little effect on detection probability, whereas detection was strongly affected by the time observers spent counting. Yet although the more time-consuming methods increased detection probability, none achieved perfect detection, nor did they reduce the effect on detection probability of the variables we measured.Synthesis. Our results show that detection is imperfect and highly heterogeneous when counting plants. To avoid biased estimates when assessing the size, temporal or spatial trends of plant populations, plant ecologists should use methods that estimate the detection probability of individuals rather than relying on raw counts.
Published: 2023

24. Data quality control considerations in multivariate environmental monitoring: experience of the French coastal network SOMLIT

Author: Breton, Elsa, Savoye, Nicolas, Rimmelin-maury, Peggy, Sautour, Benoit, Goberville, Eric, Lheureux, Arnaud, Cariou, Thierry, Ferreira, Sophie, Agogué, Hélène, Alliouane, Samir, Aubert, Fabien, Aubin, Sébastien, Berthebaud, Eric, Blayac, Hadrien, Blondel, Lucie, Boulart, Cedric, Bozec, Yann, Bureau, Sarah, Caillo, Arnaud, Cauvin, Arnaud, Cazes, Jean-baptiste, Chasselin, Leo, Claquin, Pascal, Conan, Pascal, Cordier, Marie-ange, Costes, Laurence, Crec’hriou, Romain, Crispi, Olivier, Crouvoisier, Muriel, David, Valérie, Del Amo, Yolanda, De Lary, Hortense, Delebecq, Gaspard, Devesa, Jeremy, Domeau, Aurélien, Durozier, Maria, Emery, Claire, Feunteun, Eric, Fauchot, Juliette, Gentilhomme, Valérie, Geslin, Sandrine, Giraud, Mélanie, Grangeré, Karine, Grégori, Gerald, Grossteffan, Emilie, Gueux, Aurore, Guillaudeau, Julien, Guillou, Gael, Harrewyn, Manon, Jolly, Orianne, Jude-lemeilleur, Florence, Labatut, Paul, Labourdette, Nathalie, Lachaussée, Nicolas, Lafont, Michel, Lagadec, Veronique, Lambert, Christophe, Lamoureux, Jezebel, Lanceleur, Laurent, Lebreton, Benoit, Lecuyer, Eric, Lemeille, David, Leredde, Yann, Leroux, Cédric, Leynaert, Aude, L’helguen, Stéphane, Liénart, Camilla, Macé, Eric, Maria, Eric, Marie, Barbara, Marie, Dominique, Mas, Sébastien, Mendes, Fabrice, Mornet, Line, Mostajir, Behzad, Mousseau, Laure, Nowaczyk, Antoine, Nunige, Sandra, Parra, René, Paulin, Thomas, Pecqueur, David, Petit, Franck, Pineau, Philippe, Raimbault, Patrick, Rigaut-jalabert, Fabienne, Salmeron, Christophe, Salter, Ian, Sauriau, Pierre-guy, Seuront, Laurent, Sultan, Emmanuelle, Valdès, Rémi, Vantrepotte, Vincent, Vidussi, Francesca, Voron, Florian, Vuillemin, Renaud, Zudaire, Laurent., Garcia, Nicole, Laboratoire d’Océanologie et de Géosciences (LOG) - UMR 8187 (LOG), Institut national des sciences de l'Univers (INSU - CNRS)-Université du Littoral Côte d'Opale (ULCO)-Université de Lille-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Nord]), Université du Littoral Côte d'Opale (ULCO), Environnements et Paléoenvironnements OCéaniques (EPOC), Observatoire aquitain des sciences de l'univers (OASU), Université Sciences et Technologies - Bordeaux 1 (UB)-Institut national des sciences de l'Univers (INSU - CNRS)-Centre National de la Recherche Scientifique (CNRS)-Université Sciences et Technologies - Bordeaux 1 (UB)-Institut national des sciences de l'Univers (INSU - CNRS)-Centre National de la Recherche Scientifique (CNRS)-École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Centre National de la Recherche Scientifique (CNRS), Laboratoire des Sciences de l'Environnement Marin (LEMAR) (LEMAR), Institut de Recherche pour le Développement (IRD)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Université de Brest (UBO)-Institut Universitaire Européen de la Mer (IUEM), Institut de Recherche pour le Développement (IRD)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Brest (UBO)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Brest (UBO)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS), Biologie des Organismes et Ecosystèmes Aquatiques (BOREA), Université de Caen Normandie (UNICAEN), Normandie Université (NU)-Normandie Université (NU)-Muséum national d'Histoire naturelle (MNHN)-Institut de Recherche pour le Développement (IRD)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA), Adaptation et diversité en milieu marin (ADMM), Institut national des sciences de l'Univers (INSU - CNRS)-Station biologique de Roscoff (SBR), Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS), LIttoral ENvironnement et Sociétés (LIENSs), La Rochelle Université (ULR)-Centre National de la Recherche Scientifique (CNRS), Laboratoire d'océanographie de Villefranche (LOV), Institut national des sciences de l'Univers (INSU - CNRS)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Institut de la Mer de Villefranche (IMEV), ESEO-GSII (GSII), ESEO-Tech, Université Bretagne Loire (UBL)-École supérieure d'électronique de l'ouest [Angers] (ESEO)-Université Bretagne Loire (UBL)-École supérieure d'électronique de l'ouest [Angers] (ESEO), Géosciences Montpellier, Institut national des sciences de l'Univers (INSU - CNRS)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA)-Université de Montpellier (UM), Centre d'Ecologie marine expérimentale (MEDIMEER), Université Montpellier 2 - Sciences et Techniques (UM2)-Centre National de la Recherche Scientifique (CNRS), Station biologique de Roscoff (SBR), Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS), Institut des Sciences de la Terre (ISTerre), Institut national des sciences de l'Univers (INSU - CNRS)-Institut de recherche pour le développement [IRD] : UR219-Université Savoie Mont Blanc (USMB [Université de Savoie] [Université de Chambéry])-Centre National de la Recherche Scientifique (CNRS)-Université Gustave Eiffel-Université Grenoble Alpes (UGA), De la Préhistoire à l'Actuel : Culture, Environnement et Anthropologie (PACEA), Université de Bordeaux (UB)-Centre National de la Recherche Scientifique (CNRS), Centre pour l'Aquaculture, la Pêche et l'Environnement (CAPENA), Centre de recherches en environnement côtier (CREC), Normandie Université (NU)-Normandie Université (NU), Laboratoire d'Océanographie Microbienne (LOMIC), Institut national des sciences de l'Univers (INSU - CNRS)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Observatoire océanologique de Banyuls (OOB), Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS), Centre de Physique des Particules de Marseille (CPPM), Aix Marseille Université (AMU)-Institut National de Physique Nucléaire et de Physique des Particules du CNRS (IN2P3)-Centre National de la Recherche Scientifique (CNRS), Institut de la Mer de Villefranche (IMEV), Groupement d'intérêt public pour la réhabilitation de l'étang de Berre (GIPREB), GIPREB, Centre De Recherche et d'Enseignement sur les Systèmes Côtiers (CRESCO), Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER), Normandie Université (NU), Institut méditerranéen d'océanologie (MIO), Institut de Recherche pour le Développement (IRD)-Aix Marseille Université (AMU)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Toulon (UTLN)-Centre National de la Recherche Scientifique (CNRS), UMS 3113, Institut de Recherche pour le Développement (IRD)-Université de Brest (UBO)-Centre National de la Recherche Scientifique (CNRS), Institut des sciences analytiques et de physico-chimie pour l'environnement et les materiaux (IPREM), Université de Pau et des Pays de l'Adour (UPPA)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS), Observatoire océanologique de Banyuls (OOB), Adaptation et diversité en milieu marin (AD2M), Station biologique de Roscoff [Roscoff] (SBR), Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS), Pluridisciplinarité au service de l’observation et de la recherche en environnement et astronomie (UMS POREA), Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), MARine Biodiversity Exploitation and Conservation (UMR MARBEC), Institut de Recherche pour le Développement (IRD)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM), Department of Marine Resources and Energy, Tokyo University of Marine Science and Technology (TUMSAT), Rhodes University, Grahamstown, Observatoire de REcherche Méditerranéen de l'Environnement (OSU OREME), Institut national des sciences de l'Univers (INSU - CNRS)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), OSU Stations marines (STAMAR), and CNRS-INSU, SNO SOMLIT, French National Fleet (Flotte Océanographique Française, FOF)
Subjects: data quality control, inter-laboratory comparison exercises, Global and Planetary Change, [STAT.AP]Statistics [stat]/Applications [stat.AP], [SDE.IE]Environmental Sciences/Environmental Engineering, measurement uncertainty, environmental monitoring network, Ocean Engineering, analyst performance, Aquatic Science, Oceanography, multivariate dataset, Water Science and Technology
Abstract: IntroductionWhile crucial to ensuring the production of accurate and high-quality data—and to avoid erroneous conclusions—data quality control (QC) in environmental monitoring datasets is still poorly documented.MethodsWith a focus on annual inter-laboratory comparison (ILC) exercises performed in the context of the French coastal monitoring SOMLIT network, we share here a pragmatic approach to QC, which allows the calculation of systematic and random errors, measurement uncertainty, and individual performance. After an overview of the different QC actions applied to fulfill requirements for quality and competence, we report equipment, accommodation, design of the ILC exercises, and statistical methodology specially adapted to small environmental networks (Results, Discussion, ConclusionThe examination of the temporal variations (2001–2021) in the repeatability, reproducibility, and trueness of the SOMLIT network over time confirms the essential role of ILC exercises as a tool for the continuous improvement of data quality in environmental monitoring datasets.
Published: 2023

25. Volatile organic compounds influence prey composition in Sarracenia carnivorous plants

Author: Corentin Dupont, Bruno Buatois, Jean-Marie Bessiere, Claire Villemant, Tom Hattermann, Doris Gomez, Laurence Gaume, Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Centre d’Ecologie Fonctionnelle et Evolutive (CEFE), Université Paul-Valéry - Montpellier 3 (UPVM)-École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Montpellier, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Université de Montpellier (UM), Ecole Nationale Supérieure de Chimie de Montpellier (ENSCM), Université de Montpellier (UM), Institut de Systématique, Evolution, Biodiversité (ISYEB ), Muséum national d'Histoire naturelle (MNHN)-École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA), ANR-10-LABX-0004,CeMEB,Mediterranean Center for Environment and Biodiversity(2010), and ANR-16-IDEX-0006,MUSE,MUSE(2016)
Subjects: Multidisciplinary, Moths and butterflies, Ants, Pollinators, Flowering plants, Carnivorous plants, Predation, Bees, Insect plant interaction, Odor signal, Insects, Sarracenia, Benzenoids, Leaf scent, Monoterpenes, Fatty acid derivatives, Volatile organic compounds, [SDE.BE]Environmental Sciences/Biodiversity and Ecology
Abstract: Sarracenia pitcher plants display interspecific differences in prey, so far only explained by pitcher morphology. We hypothesized that pitcher odours play a role in prey composition. We first compared odour and prey compositions among Sarracenia taxa grown together, forming a kinship gradient from S. purpurea known to capture primarily ants towards S. leucophylla known to capture many flying insects: S. purpurea, S. X mitchelliana, and S. X Juthatip soper & S. X leucophylla horticultural hybrids. We then measured several pitcher traits to disentangle the contributions of morphology and odour to prey variation. The pitcher odours were as diverse as those of generalist-pollinated flowers but with notable differences among taxa, reflecting their relatedness. VOC similarity analyses revealed taxon specificities, that mirrored those revealed by prey similarity analyses. S. X leucophylla stood out by being more specialised in flying insects like bees and moths and by releasing more monoterpenes known to attract flower visitors. S. X Juthatip soper trapped as many bees but fewer moths, sesquiterpenes contributing less to its scent. Ants and Diptera were the main prey of the other two with fatty-acid-derivative-dominated scents. Quantities of the different prey groups can be inferred 98% from quantities of the odour classes and pitcher dimensions. Two syndromes were revealed: ants associated with fatty-acid-derivatives and short pitchers; flying insects associated with monoterpenes, benzenoids and tall pitchers. In S. X leucophylla, emission rate of fatty-acid-derivatives and pitcher length explained most variation in ant captures; monoterpenes and pitcher length explained most variation in bee and moth captures; monoterpenes alone explained most variation in Diptera and wasp captures. Our results suggest that odours are key factors of the diet composition of pitcher plants. They support the hypothesis of perceptual exploitation of insect biases in carnivorous plants and provide new insights into the olfactory preferences of insect groups.
Published: 2023

26. High-intensity training with short and long intervals regulate cortical neurotrophic factors, apoptosis markers and chloride homeostasis in rats with stroke

Author: Nicolas Hugues, Caroline Pin-Barre, Thomas Brioche, Christophe Pellegrino, Eric Berton, Claudio Rivera, Jérôme Laurin, Institut des Sciences du Mouvement Etienne Jules Marey (ISM), Aix Marseille Université (AMU)-Centre National de la Recherche Scientifique (CNRS), Institut de Neurobiologie de la Méditerranée [Aix-Marseille Université] (INMED - INSERM U1249), Aix Marseille Université (AMU)-Institut National de la Santé et de la Recherche Médicale (INSERM), Université de Montpellier (UM), Dynamique Musculaire et Métabolisme (DMEM), and Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM)
Subjects: Behavioral Neuroscience, Experimental and Cognitive Psychology, [SDV.NEU]Life Sciences [q-bio]/Neurons and Cognition [q-bio.NC]
Abstract: International audience; The optimal endurance exercise parameters remain to be defined to potentiate long-term functional recovery after stroke. We aim to assess the effects of individualized high-intensity interval training (HIIT) with either long or short intervals on neurotrophic factors and their receptors, apoptosis markers and the two-main cation-chloride cotransporters in the ipsi- and contralesional cerebral cortices in rats with cerebral ischemia. Endurance performance and sensorimotor functions were also assessed METHODS: : Rats with a 2-hour transient middle cerebral artery occlusion (tMCAO) performed work-matched HIIT4 (intervals: 4min) or HIIT1 (intervals: 1min) on treadmill for 2 weeks. Incremental exercises and sensorimotor tests were performed at day 1 (D1), D8, and D15 after tMCAO. Molecular analyses were achieved in both the paretic and non-paretic triceps brachii muscles and the ipsi- and contralesional cortices at D17 RESULTS: : Gains in endurance performance are in a time-dependent manner from the first week of training. This enhancement is supported by the upregulation of metabolic markers in both triceps brachii muscles. Both regimens alter the expression of neurotrophic markers and chloride homeostasis in a specific manner in the ipsi- and contralesional cortices. HIIT acts on apoptosis markers by promoting anti-apoptotic proteins in the ipsilesional cortex CONCLUSION: : HIIT regimens seem to be of clinical relevance in the critical period of stroke rehabilitation by strongly improving aerobic performance. Also, the observed cortical changes suggest an influence of HIIT on neuroplasticity in both ipsi- and contralesional hemispheres. Such neurotrophic markers might be considered as biomarkers of functional recovery in individuals with stroke.
Published: 2023

27. A pioneer morphological and genetic study of the intertidal fauna of the Gerlache Strait (Antarctic Peninsula)

Author: Quentin Jossart, David Bauman, Camille VE Moreau, Thomas Saucède, Henrik Christiansen, Madeleine J. Brasier, Peter Convey, Rachel Downey, Blanca Figuerola, Patrick Martin, Jon Norenburg, Sebastian Rosenfeld, Marie Verheye, Bruno Danis, Laboratoire de Biologie Marine (LBM), Université libre de Bruxelles (ULB), Marine Biology, Vrije Universiteit Brussel (VUB), Biogéosciences [UMR 6282] (BGS), Université de Bourgogne (UB)-Centre National de la Recherche Scientifique (CNRS), Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Environmental Change Institute, University of Oxford, Laboratory of Biodiversity and Evolutionary Genomics, Catholic University of Leuven - Katholieke Universiteit Leuven (KU Leuven), Greenland Institute of Natural Resources (GINR), Institute for Marine and Antarctic Studies [Hobart] (IMAS), University of Tasmania [Hobart, Australia] (UTAS), British Antarctic Survey (BAS), Natural Environment Research Council (NERC), Department of Zoology [University of Johannesburg], University of Johannesburg [South Africa] (UJ), Millenium Institute Biodiversity of Antarctic and Subantarctic Ecosystems, Fenner School of Environment & Society, Australian National University (ANU), Institute of Marine Sciences / Institut de Ciències del Mar [Barcelona] (ICM), Consejo Superior de Investigaciones Científicas [Madrid] (CSIC), Royal Belgian Institute of Natural Sciences (RBINS), Smithsonian Institution National Museum of Natural History (NMNH), Laboratorio de Ecosistemas Marinos Antárticos y Subantárticos, Universidad de Magallanes (UMAG), Centro de Investigación Gaia-Antártica, Laboratory of Trophic and Isotopes Ecology, Université de Liège, Tolerance in the Southern Ocean’ project (RECTO, BR/154/A1/RECTO) funded by the ‘Belgian Science Policy Office’ (BELSPO). This is contribution no. 28 to the RECTOproject. The B121 expedition was funded by the Federation Wallonia-Brussels, the Fund for Scientific Research (FNRS), the Research Foundation – Flanders (FWO), the Leopold 3Fund for the exploration and conservation of Nature and the Royal Belgian Society for Zoology. David Bauman was funded by the Belgian American Educational Foundation (BAEF) and the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreementNo. 895799. Henrik Christiansen was funded by the BELSPOproject COPE (B2/191/P1/COPE). Blanca Figuerola receivedfunding from the Beatriu de Pinós program (2019-BP-00183),funded by the Secretary of Universities and Research (Governmentof Catalonia) and the European Union’s Horizon 2020program under the Marie Skłodowska-Curie grant agreementNo. 801370. Peter Convey was supported by NERC core fundingto the BAS ‘Biodiversity, Evolution and Adaptation’ Team., Belgian Science Policy Office, Federation Wallonia-Brussels, National Fund for Scientific Research (Belgium), Research Foundation - Flanders, Leopold III-Fonds, Royal Belgian Society for Zoology, Belgian American Educational Foundation, European Commission, Generalitat de Catalunya, Natural Environment Research Council (UK), and Agencia Estatal de Investigación (España)
Subjects: MESH: Bivalvia, General Medicine, Management, Monitoring, Policy and Law, Pollution, MESH: Biodiversity, Community structure, Benthic ecology, Seashore, MESH: Antarctic Regions, DNA barcoding, MESH: Animals, MESH: Ecosystem, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, Conserve and sustainably use the oceans, seas and marine resources for sustainable development, Southern Ocean, MESH: Environmental Monitoring, General Environmental Science
Abstract: 19 pages, 3 figures, 2 tables, supplementary information https://doi.org/10.1007/s10661-023-11066-3.-- Data availability: All genetic data, as well as photographs of voucher specimens, can be publicly accessed and downloaded on boldsystems.org, under the “INTGS” project (Intertidal fauna from the Gerlache Strait). Occurrence data can be found on the Global Biodiversity Information Facility (GBIF, B121 dataset) using the following link: https://doi.org/10.15468/56bv6z. Additional data, tables and figures are also provided as Supplementary materials. The specimens used in this study are hosted at the Université Libre de Bruxelles (ULB, Brussels, Belgium) – Laboratoire de Biologie Marine, The underexplored intertidal ecosystems of Antarctica are facing rapid changes in important environmental factors. Associated with temperature increase, reduction in coastal ice will soon expose new ice-free areas that will be colonized by local or distant biota. To enable detection of future changes in faunal composition, a biodiversity baseline is urgently required. Here, we evaluated intertidal faunal diversity at 13 locations around the Gerlache Strait (western Antarctic Peninsula), using a combination of a quadrat approach, morphological identification and genetic characterization. Our data highlight a community structure comprising four generally distributed and highly abundant species (the flatworm Obrimoposthia wandeli, the bivalve Kidderia subquadrata, and the gastropods Laevilitorina umbilicata and Laevilitorina caliginosa) as well as 79 rarer and less widely encountered species. The most abundant species thrive in the intertidal zone due to their ability to either survive overwinter in situ or to rapidly colonize this zone when conditions allow. In addition, we confirmed the presence of multiple trophic levels at nearly all locations, suggesting that complex inter-specific interactions occur within these communities. Diversity indices contrasted between sampling locations (from 3 to 32 species) and multivariate approaches identified three main groups. This confirms the importance of environmental heterogeneity in shaping diversity patterns within the investigated area. Finally, we provide the first genetic and photographic baseline of the Antarctic intertidal fauna (106 sequences, 137 macrophotographs), as well as preliminary insights on the biogeography of several species. Taken together, these results provide a timely catalyst to assess the diversity and to inform studies of the potential resilience of these intertidal communities, This work was supported by the ‘Refugia and Ecosystem Tolerance in the Southern Ocean’ project (RECTO; BR/154/A1/RECTO) funded by the ‘Belgian Science Policy Office’ (BELSPO). [...] The B121 expedition was funded by the Federation Wallonia-Brussels, the Fund for Scientific Research (FNRS), the Research Foundation – Flanders (FWO), the Leopold 3 Fund for the exploration and conservation of Nature and the Royal Belgian Society for Zoology. David Bauman was funded by the Belgian American Educational Foundation (BAEF) and the European Union's Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement No. 895799. Henrik Christiansen was funded by the BELSPO project COPE (B2/191/P1/COPE). Blanca Figuerola received funding from the Beatriu de Pinós program (2019-BP-00183), funded by the Secretary of Universities and Research (Government of Catalonia) and the European Union's Horizon 2020 program under the Marie Skłodowska-Curie grant agreement No. 801370. Peter Convey was supported by NERC core funding to the BAS ‘Biodiversity, Evolution and Adaptation’ Team, With the institutional support of the ‘Severo Ochoa Centre of Excellence’ accreditation (CEX2019-000928-S)
Published: 2023

28. Developmental trajectories and Ecology of Monocarpic Trees: Insights from the genus Cerberiopsis (Apocynaceae)

Author: Salmon, Camille, Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Université de Montpellier (UM), FRA, Patrick Heuret, and Sandrine Isnard, co-encadrante
Subjects: Monocarpy, Dendrochronology, Phenology, New Caledonia, Plant architecture, Dendrochronologie, Traits fonctionnels, Monocarpie, Phenologie, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, Functional traits, Architecture végétale
Abstract: Semelparity is the ability of an organism to reproduce once and then die. In plants, this life history strategy is also named monocarpy. After a unique flowering event, the whole plant dies. This strategy inherently characterizes annual and biennial herbaceous, and frequently occurs in bamboo and palms, but remains extremely rare in woody branched plants such as shrubs and trees. Branched plants are long-lived organisms and present multiple meristems (growing points) that are as many opportunities to flower at different times. Therefore, the persistence of the monocarpic strategy in such plants is questionable since a premature death of the individual in the decades before the flowering will prevent any descendants. About twenty-nine monocarpic canopy tree species are recorded worldwide all included in two tropical and subtropical genera: Tachigali (Fabaceae) and Cerberiopsis (Apocynaceae). This latter is endemic to New Caledonia and consists of three species with different habits. While C. neriifolia and C. obtusifolia are respectively a polycarpic (multi-flowering) treelet and shrub, C. candelabra is a large monocarpic rainforest tree. In this thesis, we investigate the morpho-anatomical bases of monocarpy, its underlying ecological implications, and functional adaptations. (1) Through a comparative analysis, we highlight that the variation of only a few architectural traits has led to the emergence of this strategy within the genus Cerberiopsis, and flowering in C. candelabra is independent of tree age, size, or senescence. (2) Based on growth monitoring, we show that C. candelabra exhibits high survival and growth rates at the juvenile stage, and forms monodominant regenerations. These two studies pave the way to (3) an integrative retrospective analysis: we reconstruct the developmental trajectories of the Cerberiopsis species and demonstrate that their growth phenology is sensitive to climate seasonality. C. candelabra exhibits strong structural and temporal regularities, as well as a high degree of synchronization between all developmental processes. These particularities might have been preconditions for the evolution of its monocarpic strategy. Finally, my work introduces (4) a new type of annual growth ring that results from the production of circular tension wood, a potential adaptive feature related to the cyclonic season of New Caledonia. The processes underlying monocarpic flowering and its triggers are discussed throughout the different chapters of this thesis. We suggest that flowering depends on endogenous preconditions and is triggered in C. candelabra by large-scale disturbances such as fires and tropical cyclones.; La sémelparité définit un organisme qui se reproduit une unique fois avant de mourir. Cette histoire de vie est également nommée monocarpie chez les végétaux. La plante meurt après un unique épisode de floraison. Cette stratégie est inhérente chez les herbacées annuelles et bisannuelles, et se rencontre fréquemment chez les bambous et les palmiers. Elle reste toutefois extrêmement rare chez les plantes ligneuses ramifiées comme les buissons et les arbres. Les plantes ramifiées sont des organismes à longue durée de vie et présentent de multiples méristèmes (points de croissance) qui sont autant d'opportunités de fleurir à différents moments. La persistance de la stratégie monocarpique chez ces plantes est ainsi questionnable car une mort prématurée de l'individu dans les décennies précédant la floraison effacera toute descendance. Environ vingt-neuf espèces d'arbres de canopée monocarpiques sont connues à l'échelle mondiale appartenant à deux genres tropicaux et subtropicaux : Tachigali (Fabaceae) et Cerberiopsis (Apocynaceae). Ce dernier est endémique de Nouvelle-Calédonie et comprends trois espèces aux biologies différentes. Tandis que C. neriifolia et C. obtusifolia sont respectivement un arbuste et un buisson polycarpique (à floraison multiple), C. candelabra est un arbre monocarpique. Dans cette thèse, nous explorons les fondements morpho-anatomiques de la monocarpie, ses implications écologiques et ses adaptations fonctionnelles sous-jacentes. (1) Nous mettons en évidence à travers une analyse comparative que la variation de seulement quelques traits architecturaux a conduit à l'émergence de cette stratégie au sein du genre Cerberiopsis, et que la floraison chez C. candelabra est indépendante de l'âge, de la taille ou de la sénescence de l'arbre. (2) Nous montrons sur la base d'un suivi de croissance que C. candelabra présente des taux de survie et de croissance élevés au stade juvénile, et forme des régénérations mono-dominantes. Ces deux études ouvrent la voie à (3) une analyse rétrospective intégrative : nous reconstruisons les trajectoires de développement des espèces du genre et démontrons que leur phénologie de croissance est sensible à la saisonnalité du climat. C. candelabra présente de fortes régularités structurelles et temporelles, ainsi qu'un haut degré de synchronisation entre l'ensemble des processus de développement. Ces particularités sont proposées être des conditions préalables à l'évolution de sa stratégie monocarpique. Enfin, mon travail introduit (4) un nouveau type de cerne de croissance annuel qui résulte de la production de bois de tension circulaire, un potentiel trait adaptatif à la saison cyclonique de Nouvelle-Calédonie. Les processus sous-jacents à la floraison monocarpique et ses déclencheurs sont discutés tout au long des différents chapitres. Nous suggérons que la floraison dépend de conditions préalables endogènes et est déclenchée chez C. candelabra par des perturbations à large échelle telles que les incendies et les cyclones tropicaux.
Published: 2023

29. Analysing the architecture of Corylus avellana and parametrizing L-HAZELNUT FSPM

Author: Grisafi, Francesca, Tombesi, Sergio, Farinelli, Daniela, Boudon, Frédéric, Durand, Jean-Baptiste, Costes, Evelyne, Università cattolica del Sacro Cuore [Piacenza e Cremona] (Unicatt), Università degli Studi di Perugia = University of Perugia (UNIPG), Amélioration génétique et adaptation des plantes méditerranéennes et tropicales (UMR AGAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Montpellier, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Université de Montpellier (UM), Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Modèles statistiques bayésiens et des valeurs extrêmes pour données structurées et de grande dimension (STATIFY), Inria Grenoble - Rhône-Alpes, Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria)-Laboratoire Jean Kuntzmann (LJK), Institut National de Recherche en Informatique et en Automatique (Inria)-Centre National de la Recherche Scientifique (CNRS)-Université Grenoble Alpes (UGA)-Institut polytechnique de Grenoble - Grenoble Institute of Technology (Grenoble INP ), Université Grenoble Alpes (UGA)-Centre National de la Recherche Scientifique (CNRS)-Université Grenoble Alpes (UGA)-Institut polytechnique de Grenoble - Grenoble Institute of Technology (Grenoble INP ), Université Grenoble Alpes (UGA), Département Systèmes Biologiques (Cirad-BIOS), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), Dr. Susann Müller, Tsu-Wei Chen, Andreas Fricke, Katrin Kahlen, and Susann Müller and Hartmut Stützel
Subjects: modelling, [MATH.MATH-ST]Mathematics [math]/Statistics [math.ST], hazelnut, Lpy, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology
Abstract: International audience; Introduction - Tree architecture is a fundamental part of a functional structural plant model. This is particularly evident in perennial tree crops where the structure of the plant influences the position of source and sink organs, as well as light interception inside the canopy, and serves as storage pool for exceeding carbohydrates. Therefore, a precise description of tree 3D structure is essential to realistically allocate carbohydrates in a FSPM (Costes et al., 2006). Hazelnut tree architecture has different characteristics compared to other fruit tree crops that have been modelled (i.e., peach, mango, apple, and kiwi). It is a monoecious species. Female flowers are grouped into inflorescences located into mixed buds, while male flowers are arranged into inflorescences in the apical position of sylleptic shoots. Each node could bear more than one bud and, the following year, the new shoots are much shorter than the shoots from which they were born. The present study aimed to analyse hazelnut one-year-old shoots 'architecture in order to build the structural part of L-HAZELNUT: a functional structural plant model of hazelnut (Corylus avellana). Material and Methods - Own-rooted tree clones of C.avellana, cultivar “Tonda di Giffoni”, were chosen, during winter, in 2020 and 2021 in Deruta (Italy). Plants were normally irrigated and fertilized. No pruning occurred during the two years. 104 one-year-old proleptic shoots were sampled according to four length categories: short (Sh) when shorter than 5 cm, medium (Me) when they were between 5 and 20 cm, long (Lo) when they were between 20 and 40 cm, and very long (VLo) when longer than 40 cm. For each shoot, diameter, length, and number of nodes were recorded. From the base of the shoot to its tip, the fate of each node was noted. Four fates are distinguished in C.avellana: blind nodes, vegetative buds, sylleptic shoots and mixed buds. In the year subsequent to sampling, the same measurements were repeated on the lateral shoots that were born from the buds. Statistical analyses were done in 2022, using packages from RStudio. First, exploratory analyses were performed to investigate the distribution of the bud types or sylleptic shoots depending on the rank node along the one-year-old proleptic shoots and thus, to address if there were some homogeneous zone (i.e., zones characterized by a stable distribution of the possible bud fates (Guédon et al., 2001)). This led us to draw a flux diagram (Figure 1). Each part of the diagram corresponds to specific logical connections, between FSPM components, which were addressed using specific probabilistic models, inferred from the collected data set. Results and Discussion - During this study new knowledge regarding the architecture of C.avellana was acquired. Even though male flowers were stated to be located on proleptic shoots 'nodes (Botta & Valentini, 2018), we instead highlighted the presence of male flowers in the apical position of sylleptic shoots. It was also observed that hazelnut has a sympodial growth. Each statistical model, associated with the FSPM components, was used to define functions to answer each of the questions addressed in the flow diagram. All the functions were coded in L-py (Boudon et al., 2012) to build a L-system program able to generate the architecture of hazelnut (Figure 1). Conclusion - This led to a first coarse FSPM named L-HAZELNUT, in reference to some previous FSPM for fruit tree crops (Lopez et al., 2010). It simulates the growth of a hazelnut tree over two successive years. The conception of an FSPM is a long and meticulous process that requires having in mind a clear scheme that describes the growing and branching processes. Such a scheme can be acquired by appropriate observations and analyses of how the plant grows and develops. However, as many aspects of the plant have to be considered, the accuracy of the presented 3D structure has still to be evaluated and further studies will be necessary to validate them. Moreover, L-HAZELNUT model should be complemented in the next future with a functional part describing carbon acquisition and partitioning within the tree.
Published: 2023

30. Disrupted montane forest recovery hinders biodiversity conservation in the tropical Andes

Author: Tina Christmann, Ximena Palomeque, Dolors Armenteras, Sarah Jane Wilson, Yadvinder Malhi, Imma Oliveras Menor, University of Oxford, Universidad de Cuenca (UCUENCA), Universidad Nacional de Colombia [Bogotà] (UNAL), Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), and Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM)
Subjects: Global and Planetary Change, Ecology, Forest restoration, Cloud forest, NDWI, Tropical montane forest, Landsat time series, Natural regeneration, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, Forest transition, Google Earth Engine, Ecology, Evolution, Behavior and Systematics
Abstract: International audience; Aim: Andean montane forests are biodiversity hotspots and large carbon stores and they provide numerous ecosystem services. Following land abandonment after centuries of forest clearing for agriculture in the Andes, there is an opportunity for forest recovery. Field-based studies show that forests do not always recover. However, large-scale and long-term knowledge of recovery dynamics of Andean forests remains scarce. This paper analyses tropical montane forest recovery trajectories over a 15-year time frame at the landscape and tropical Andean scale to inform restoration planning. Methods: We first detect “potential recovery” as areas that have experienced a forest transition between 2000 and 2005. Then, we use Landsat time series analysis of the normalized difference water index (NDWI) to classify four “realized recovery” trajectories (“ongoing”, “arrested”, “disrupted” and “no recovery”) based on a sequential pattern of 5-yearly Z-score anomalies for 2005–2020. We compare these results against an analysis of change in tree cover to validate against other datasets. Results: Across the tropical Andes, we detected a potential recovery area of 274 km2 over the period. Despite increases in tree cover, most areas of the Andes remained in early successional states (10–25% tree cover), and NDWI levelled out after 5–10 years. Of all potential forest recovery areas, 22% showed “ongoing recovery”, 61% showed either “disrupted” or “arrested recovery”, and 17% showed “no recovery”. Our method captured forest recovery dynamics in a Peruvian arrested succession context and in landscape-scale tree-planting efforts in Ecuador. Main conclusions: Forest recovery across the Andes is mostly disrupted, arrested or unsuccessful, with consequences for biodiversity recovery and provision of ecosystem services. Low-recovery areas identified in this study might be good candidates for active restoration interventions in this UN Decade on Restoration. Future studies could determine restoration strategies and priorities and suggest management strategies at a local planning scale across key regions in the biodiversity hotspot.
Published: 2023

31. Pre-assessments of plant conservation status in islands: the case of French Overseas Territories

Author: Véron, Simon, Bernard, Arthur, Lebreton, Elise, Rodrigues-Vaz, Carlos, Durand, M, Procopio, Lilian, Hélion, Mike, Gayot, Marc, Viscardi, Guillaume, Krupnick, Gary, Carrington, C M Sean, Boullet, Vincent, Mallet, Bertrand, Dimassi, Abassi, Pailler, Thierry, Hivert, Jean, Lebouvier, Marc, Agnola, Pierre, Bruy, David, Gateblé, Gildas, Lannuzel, Guillaume, Meyer, Shankar, Gargominy, Olivier, Gigot, Guillaume, Invernon, Vanessa, Leblond, Sébastien, Pignal, Marc, Tercerie, Sandrine, Muller, Serge, Rouhan, Germinal, Institut de Systématique, Evolution, Biodiversité (ISYEB ), Muséum national d'Histoire naturelle (MNHN)-École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA), Diversité, adaptation, développement des plantes (UMR DIADE), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Université de Montpellier (UM), Office national des forêts (ONF), Conservatoire Botanique de Martinique (CBMq), Smithsonian Institution, The University of the West Indies, Institut de Géoarchitecture, Université de Bretagne Sud (UBS)-Université de Brest (UBO)-Institut Brestois des Sciences de l'Homme et de la Société (IBSHS), Université de Brest (UBO)-Université de Brest (UBO), Université de La Réunion (UR), Ecosystèmes, biodiversité, évolution [Rennes] (ECOBIO), Université de Rennes (UR)-Institut Ecologie et Environnement (INEE), Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS)-Observatoire des Sciences de l'Univers de Rennes (OSUR), Université de Rennes (UR)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Rennes 2 (UR2)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut national des sciences de l'Univers (INSU - CNRS)-Université de Rennes 2 (UR2)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Centre National de la Recherche Scientifique (CNRS), Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Herbier de Nouvelle-Calédonie (Herbier NOU), Institut de Recherche pour le Développement (IRD [Nouvelle-Calédonie]), Institut Agronomique Néo-Calédonien (IAC), New Caledonia Plant Red List Authority Endemia, Patrimoine naturel (PatriNat), Muséum national d'Histoire naturelle (MNHN)-Institut de Recherche pour le Développement (IRD)-Centre National de la Recherche Scientifique (CNRS)-Office français de la biodiversité (OFB), Office Français de la Biodiversité (OFB), Ministère des Outre-mer, and Muséum national d’Histoire naturelle (MNHN)
Subjects: Islands, Ecology, Red List, Tracheophytes, [SDE.MCG]Environmental Sciences/Global Changes, Endemics, Pre-assessments, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, [SDV.BV.BOT]Life Sciences [q-bio]/Vegetal Biology/Botanics, Ecology, Evolution, Behavior and Systematics, Nature and Landscape Conservation, French overseas territories
Abstract: International audience; Assessment methods have been developed to estimate a preliminary conservation status for species and subsequently to facilitate the building of Red Lists. Such pre-assessment methods could be particularly useful in the French Overseas Territories (FOTs) where Red Lists tend to be outdated or absent and where a high number of endemic species face detrimental anthropogenic pressures. We first aimed to conduct a preliminary assessment (hereafter, pre-assessment) of the conservation status of endemic plants from Guadeloupe, Martinique, Réunion, Mayotte, French sub-Antarctic islands, New Caledonia, and Scattered Islands. We then compared the various methods used in conducting the pre-assessment and discussed ways to adapt these methods to small territories. We compiled occurrence data of endemic species identified thanks to a previous taxonomic work and pre-assessed their conservation status under Red List criteria A and B and the use of a Random Forest algorithm. We then measured the accuracy, specificity, and sensitivity of each method based on existing Red Lists. The Random Forest algorithm and a method based on range-size performed best at correctly attributing conservation status. Using these pre-assessment methods, we estimated that up to 60% of the endemic flora of the FOTs is potentially threatened. Range restriction but also anthropogenic pressures were key factors that explained these risks. Pre-assessment methods are useful tools to get a first measure of species conservation status. These methods should be adapted to the territories considered and their conservation issues in order to reach a good performance.
Published: 2023

32. Modelling the growth stress in tree branches: eccentric growth vs. reaction wood

Author: van Rooij, A, Badel, Eric, Barczi, Jean-François, Caraglio, Yves, Almeras, Tancrede, Gril, Joseph, Laboratoire de Physique et Physiologie Intégratives de l’Arbre en environnement Fluctuant (PIAF), Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université Clermont Auvergne (UCA), Institut Pascal (IP), Centre National de la Recherche Scientifique (CNRS)-Université Clermont Auvergne (UCA)-Institut national polytechnique Clermont Auvergne (INP Clermont Auvergne), Université Clermont Auvergne (UCA)-Université Clermont Auvergne (UCA), Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Bois (BOIS), Laboratoire de Mécanique et Génie Civil (LMGC), and Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM)
Subjects: [PHYS.MECA.BIOM]Physics [physics]/Mechanics [physics]/Biomechanics [physics.med-ph], growth stress, biomechanics, tree branches
Abstract: This work aims to model the mechanical processes used by tree branches to control their posture despite their increasing weight loading. The two known options for a branch to maintain its orientation are the asymmetry of maturation stress, including reaction wood formation, and eccentric radial growth. Both options can be observed in nature and influence the stress distribution developed in the branch each year. This so-called "growth stress" reflects the mechanical state of the branch. In this work, a growth stress model was developed at the cross-section level in order to quantify and study the bio-mechanical impact of each process. For illustration, this model was applied to branches of two 50-year-old trees, one softwood Pinus pinaster and one hardwood Prunus avium (wild cherry tree), both simulated with the AmapSim discrete element software. For the wild cherry tree, the computed ouputs highlighted that the eccentricity of radial growth seems to be as efficient as the formation of reaction wood to maintain the postural control despite the increasing gravity. For the pine tree, eccentric radial growth appears to be less efficient than the formation of reaction wood. But although it does not necessarily act as a relevant lever for postural control, it greatly modifies the profile pattern of mechanical stress and could provide mechanical safety of the branch. This work opens experimental perspectives to understand the biomechanical processes involved in the formation of branches and their mechanical safety.
Published: 2023

33. Habitat partitioning of soil microbial communities along an elevation gradient: from plant root to landscape scale

Author: Luis Merino‐Martín, Daniel Hernández‐Cáceres, Frédérique Reverchon, Guillermo Angeles‐Alvarez, Guangqi Zhang, Denis Dunoyer de Segonzac, Damien Dezette, Alexia Stokes, Universidad Rey Juan Carlos [Madrid] (URJC), Centre d’Ecologie Fonctionnelle et Evolutive (CEFE), Université Paul-Valéry - Montpellier 3 (UPVM)-École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Montpellier, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Université de Montpellier (UM), Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Red de Ecología Funcional, Instituto de Ecología, Veracruz, ADNid, Partenaires INRAE, Ecologie fonctionnelle et biogéochimie des sols et des agro-écosystèmes (UMR Eco&Sols), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut de Recherche pour le Développement (IRD)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Montpellier, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), CONACYT-2, and ANR-16-CE03-0009,ECOPICS,Services écosystémiques souterrains produits par les communautés végétales le long de gradients altitudinaux en France et au Mexique(2016)
Subjects: Microbial diversity, Picea abies, Vaccinium myrtillus, French Alpes, Root traits, [SDV.BV.BOT]Life Sciences [q-bio]/Vegetal Biology/Botanics, [SDV.BID.SPT]Life Sciences [q-bio]/Biodiversity/Systematics, Phylogenetics and taxonomy, [SDV.EE.ECO]Life Sciences [q-bio]/Ecology, environment/Ecosystems, Mountain ecosystem, Juniperus communis, Soil properties, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, Alpine ecosystem, Ecology, Evolution, Behavior and Systematics
Abstract: International audience; Within a landscape, multiple habitats exist for soil microbial communities. But how these habitats shape community composition requires an understanding of the way in which microbial diversity is impacted across a broad range of spatial scales. Mountain ecosystems are excellent systems to study microbial communities, because a multitude of climate and soil variables change within a relatively small distance. We investigated microbial community structure in bulk and rhizosphere soils beneath three plant species, Vaccinium myrtillus, Juniperus communis and Picea abies, that structure local plant communities along an elevation gradient in the French Alps. We examined the impact that climate, soil properties, plant diversity and plant root chemical and morphological traits had on microbial αand β-diversities. The most abundant bacterial phyla detected in both bulk and rhizosphere soils were Proteobacteria, Actinobacteria, Acidobacteria and Verrucomicrobia. Along the elevation gradient, bacterial phyla did not display a clear distribution pattern between bulk and rhizosphere soils. For fungi, dominant phyla were Ascomycota and Basidiomycota, and contrasting distribution patterns were found between bulk and rhizosphere soils. Overall, bacterial and fungal α-diversity responded differently to elevation as well to soil compartments (bulk versus rhizosphere soil), revealing no significant patterns in bulk soil beneath any of the structuring plant species, but increasing in the rhizosphere compartment of P. abies just below the treeline. Changes in bacterial β-diversity with elevation were related mostly to soil physical and chemical properties. Bacterial and fungal α-diversity in rhizosphere communities were more related to plant species identity, vegetation diversity and belowground plant traits compared to soil properties, whilst the opposite was found for bulk soil. Our results highlight that environmental changes at the landscape scale (e.g. associated to elevation, soil properties or climate), impact significantly soil microbial communities, but vegetation refines communities at a local scale via the rhizosphere niche.
Published: 2023

34. Drivers of soil biophysical processes along an elevational gradient at Pico de Orizaba volcano, Mexico

Author: Guillermo Angeles, Marycruz Álvarez-Jiménez, Fabien Anthelme, Isabelle Barois, José Luis Chaparro Carrillo, Nereyda Cruz-Maldonado, Thibaud Decaens, Martín de los Santos-Bailón, Stéphane Fourtier, Emmanuel García-Gutiérrez, David García-Segura, Rodrigo Gómez-Aguilar, Antonio Gómez-Anaya, Eduardo Hernández, Daniel Hernández-Cáceres, Leonor Jiménez, Beatriz E. Marín-Castro, Luis Merino-Martín, Marco A. Morales-Martínez, Edwin U. Monfil-León, René A. Palestina, Carlos Pimentel-Reyes, Ricardo Quiroz Reyes, Frédérique Reverchon, Hervé Rey, Catherine Roumet, Christina D. Siebe-Grabach, Katrin Sieron, Víctor Vázques Reyes, Monique Weemstra, Alexia Stokes, Instituto de Ecologia (INECOL), Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Universidad Autónoma del Estado de México (UAEM), Centre d’Ecologie Fonctionnelle et Evolutive (CEFE), Université Paul-Valéry - Montpellier 3 (UPVM)-École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Montpellier, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Université de Montpellier (UM), Universidad Nacional Autónoma de México = National Autonomous University of Mexico (UNAM), Autonomous University of Coahuila, Partenaires INRAE, Universidad Veracruzana, Universidad Rey Juan Carlos [Madrid] (URJC), Universidad de Ciencias y Artes de Chiapas, Inrae, Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), CONACYT–2 73659, and ANR-16-CE03-0009,ECOPICS,Services écosystémiques souterrains produits par les communautés végétales le long de gradients altitudinaux en France et au Mexique(2016)
Subjects: Cultural Studies, Bulk soil and rhizosphere microbial communities, Carbon storage, Soil structure and soil moisture monitoring, High mountain ecosystem, [SDE]Environmental Sciences, Religious studies, Plant community traits, Soil hydrophysical properties, Soil macro and meso‑fauna, Elevational gradient, Soil biodiversity
Abstract: Elevational gradients are characterized by major shifts in environmental conditions, reflected through changes in climatic and soil variables. These shifts strongly impact the composition, community structure and specific functional traits of vegetation. Vegetation, in turn, influences soil properties through litter input, root growth and the release of root exudates, thereby influencing soil microbial and faunal communities. Here, we report and briefly describe data of soil and underlying bedrock physical and chemical properties, climatic variables, plant community composition and species abundance, soil microbial diversity and macro and mesofaunal abundance and diversity. Data are provided for 6 elevations (3400–4600 m) ranging from pine forest to alpine prairie. We focused on soil biophysical properties beneath several keystone or community-structuring plant species with different growth forms: (1) tree (Pinus hartwegii Lindl.); shrub (Oxylobus arbutifolius (Kunth) A. Gray and Chionolaena lavandulifolia (Kunth ex Kunth) Benth. & Hook.f. ex B.D.Jacks.); and (3) herb (Lupinus montanus Kunth and Senecio roseus Sch.Bip.). These data are useful for understanding how shifts in abiotic conditions and vegetation communities along an elevational gradient affect soil ecosystem services such as water infiltration, soil aggregation and carbon (C) storage, and modify soil biodiversity. The collected data also provide useful information to understand how alpine vegetation, soil macro- and meso-fauna, and soil bacterial communities may shift under a climate change scenario.
Published: 2023

35. Exploring the link between spectral variance and upper canopy taxonomic diversity in a tropical forest: influence of spectral processing and feature selection

Author: Badourdine, Colette, Féret, Jean‐baptiste, Pélissier, Raphaël, Vincent, Grégoire, Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Territoires, Environnement, Télédétection et Information Spatiale (UMR TETIS), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-AgroParisTech-Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), ANR-17-CE32-0001,BioCop,Suivi de la biodiversité tropicale avec les satellites Sentinel-2 du programme Copernicus(2017), and ANR-10-LABX-0025,CEBA,CEnter of the study of Biodiversity in Amazonia(2010)
Subjects: forest canopy, tropical forest biodiversity, Biodiversity mapping, imaging spectroscopy, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, features selection, [SPI.SIGNAL]Engineering Sciences [physics]/Signal and Image processing, spectral diversity
Abstract: International audience; The rapid loss of biodiversity in tropical rainforests calls for new remote sensing approaches capable of providing rapid estimates of biodiversity over large areas. Imaging spectroscopy has shown potential for the estimation of taxonomic diversity, but the link with spectral diversity has not been investigated extensively with experimental data so far. We explored the relationship between taxonomic diversity and visible to near infrared spectral variance derived from various spectral processing techniques by means of a labeled dataset comprising 2000 individual tree crowns from 200 species from an experimental tropical forest station in French Guiana. We generated a set of artificially assembled communities covering a broad range of taxonomic diversity from this experimental dataset. We analyzed the impact of various processing steps: spectral normalization, spectral transformation through principal component analysis, and feature selection. Correlation between taxonomic diversity and inter-specific spectral variance was strong. Correlation was lower with total spectral variance, with or without normalization and transformation. Dimensionality reduction through feature selection resulted in dramatic improvement of the correlation between Shannon index and spectral variance. While airborne diversity mapping of tropical forest may not be at hand yet, our results confirm that spectral diversity metrics, when computed on properly preprocessed and selected spectral information can predict taxonomic diversity in tropical ecosystems.
Published: 2023

36. Piperaceae Raddianae : A taxonomic and nomenclatural study of Giuseppe Raddi's Brazilian Piperaceae

Author: Elsie Franklin Guimarães, George Azevedo de Queiroz, Piero G. Delprete, Riccardo M. Baldini, Instituto de Pesquisas Jardim Botanico do Rio de Janeiro (JBRJ), Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), and Università degli Studi di Firenze = University of Florence (UniFI)
Subjects: Neotropics, Rio de Janeiro, Typification, Plant Science, South America, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, [SDV.BID.SPT]Life Sciences [q-bio]/Biodiversity/Systematics, Phylogenetics and taxonomy, Piper, Ecology, Evolution, Behavior and Systematics, Peperomia
Abstract: International audience; Giuseppe Raddi collected in the state of Rio de Janeiro, Brazil, from November 1817 to June 1818. He published 12 new names in the family Piperaceae in an article that appeared in 1828. Raddi's article has not been cited in specialized literature and these names were never properly studied. In the present study, these names are typified, and their identity is clarified. Five new combinations are here presented, namely Peperomia callitrichoides, P. catesbaeifolia, P. cylindrica, P. gracillima, and P. plantaginifolia. The new name Piper raddianum is published, honoring him and his botanical accomplishments. In addition, the names Piper scutatum, Piper scolopendrifolium, Piper truncatum, Piper fluminense, Steffensia ampla (≡ Piper amplum), Piper variabile, Piper catesbaeafolium, Piper cylindricum, Piper pumilum, Peperomia martiana, and Piper gracillimum are here lectotypified.
Published: 2023

37. Geographic patterns of tree dispersal modes in Amazonia and their ecological correlates

Author: Correa, Diego F., Stevenson, Pablo R., Umaña, Maria Natalia, Coelho, Luiz de Souza, Lima Filho, Diógenes de Andrade, Salomão, Rafael P., do Amaral, Iêda Leão, Wittmann, Florian, Matos, Francisca Dionízia de Almeida, Castilho, Carolina V., Phillips, Oliver L., Guevara, Juan Ernesto, Carim, Marcelo de Jesus Veiga, Magnusson, William E., Sabatier, Daniel, Molino, Jean-François, Irume, Mariana Victória, Martins, Maria Pires, Guimarães, José Renan da Silva, Bánki, Olaf S., Piedade, Maria Teresa Fernandez, Pitman, Nigel C. A., Monteagudo Mendoza, Abel, Ramos, José Ferreira, Luize, Bruno Garcia, Novo, Evlyn Márcia Moraes de Leão, Núñez Vargas, Percy, Silva, Thiago Sanna Freire, Venticinque, Eduardo Martins, Manzatto, Angelo Gilberto, Reis, Neidiane Farias Costa, Terborgh, John W., Casula, Katia Regina, Honorio Coronado, Euridice N., Montero, Juan Carlos, Schöngart, Jochen, Cárdenas López, Dairon, Costa, Flávia R. C., Quaresma, Adriano Costa, Zartman, Charles Eugene, Killeen, Timothy J., Marimon, Beatriz S., Marimon-Junior, Ben Hur, Vasquez, Rodolfo, Mostacedo, Bonifacio, Demarchi, Layon O., Feldpausch, Ted R., Assis, Rafael L., Baraloto, Christopher, Engel, Julien, Petronelli, Pascal, Castellanos, Hernán, de Medeiros, Marcelo Brilhante, Simon, Marcelo Fragomeni, Andrade, Ana, Camargo, José Luís, Laurance, Susan G. W., Laurance, William F., Maniguaje Rincón, Lorena, Schietti, Juliana, Sousa, Thaiane R., Farias, Emanuelle de Sousa, Lopes, Maria Aparecida, Magalhães, José Leonardo Lima, Nascimento, Henrique Eduardo Mendonça, de Queiroz, Helder Lima, Aymard C., Gerardo A., Brienen, Roel, Cardenas Revilla, Juan David, Vieira, Ima Célia Guimarães, Cintra, Bruno Barçante Ladvocat, Feitosa, Yuri Oliveira, Duivenvoorden, Joost F., Mogollón, Hugo F., Araujo-Murakami, Alejandro, Ferreira, Leandro Valle, Lozada, José Rafael, Comiskey, James A., de Toledo, José Julio, Damasco, Gabriel, Dávila, Nállarett, García-Villacorta, Roosevelt, Lopes, Aline, Vicentini, Alberto, Draper, Freddie C., Castaño Arboleda, Nicolás, Cornejo Valverde, F., Cornejo Valverde, Fernando, Alonso, Alfonso, Dallmeier, Francisco, Gomes, Vitor H. F., Neill, David, de Aguiar, Daniel P. P., Arroyo, Luzmila, Carvalho, Fernanda Antunes, de Souza, Fernanda Coelho, do Amaral, Dário Dantas, Feeley, Kenneth J., Gribel, Rogerio, Pansonato, Marcelo Petratti, Barlow, Jos, Berenguer, Erika, Ferreira, Joice, Fine, Paul V. A., Guedes, Marcelino Carneiro, Jimenez, Eliana M., Licona, Juan Carlos, Peñuela Mora, Maria Cristina, Villa Zegarra, Boris Eduardo, Cerón, Carlos, Fonty, Émile, Henkel, Terry W., Householder, John Ethan, Maas, Paul, Silveira, Marcos, Stropp, Juliana, Thomas, Raquel, Durgante, Flávia Machado, Baker, Tim R., Daly, Doug, Huamantupa-Chuquimaco, Isau, Milliken, William, Pennington, Toby, Ríos Paredes, Marcos, Molina, Pardo, Fuentes, Alfredo, Klitgaard, Bente, Marcelo Peña, José Luis, Peres, Carlos A., Silman, Miles R., Tello, J. Sebastián, Campelo, Wegliane, Chave, Jerome, Di Fiore, Anthony, Hilário, Renato Richard, Phillips, Juan Fernando, Rivas-Torres, Gonzalo, van Andel, Tinde R., von Hildebrand, Patricio, Pereira, Luciana de Oliveira, Barbosa, Edelcilio Marques, Barbosa, Flávia Rodrigues, Bonates, Luiz Carlos de Matos, Carpanedo, Rainiellen de Sá, Dávila Doza, Hilda Paulette, Zárate Gómez, Ricardo, Gonzales, Therany, Gallardo Gonzales, George Pepe, Hoffman, Bruce, Junqueira, André Braga, Malhi, Yadvinder, Miranda, Ires Paula de Andrade, Mozombite Pinto, Linder Felipe, Prieto, Adriana, Jesus Rodrigues, Domingos de, Rudas, Agustín, Ruschel, Ademir R., Silva, Natalino, Vela, César I. A., Vos, Vincent Antoine, Zent, Stanford, Zent, Egleé L., Noronha, Janaína Costa, Albuquerque, Bianca Weiss, Cano, Angela, Carrero Márquez, Yrma Andreina, Costa, Janaina Barbosa Pedrosa, Flores, Bernardo Monteiro, Galbraith, David, Holmgren, Milena, Kalamandeen, Michelle, Nascimento, Marcelo Trindade, Oliveira, Alexandre A., Ramirez-Angulo, Hirma, Rocha, Maira, Scudeller, Veridiana Vizoni, Sierra, Rodrigo, Tirado, Milton, van der Heijden, Geertje, Vilanova Torre, Emilio, Vriesendorp, Corine, Pombo, Maihyra Marina, Ahuite Reategui, Manuel Augusto, Baider, Cláudia, Balslev, Henrik, Cárdenas, Sasha, Casas, Luisa Fernanda, Farfan-Rios, William, Ferreira, Cid, Linares-Palomino, Reynaldo, Mendoza, Casimiro, Mesones, Italo, Torres-Lezama, Armando, Urrego Giraldo, Ligia Estela, Villarroel, Daniel, Zagt, Roderick, Parada, Germaine Alexander, Alexiades, Miguel N., de Oliveira, Edmar Almeida, Garcia-Cabrera, Karina, Hernandez, Lionel, Palacios Cuenca, Walter, Pansini, Susamar, Pauletto, Daniela, Ramirez Arevalo, Freddy, Sampaio, Adeilza Felipe, Valderrama Sandoval, Elvis H., Valenzuela Gamarra, Luis, ter Steege, Hans, DIEGO F. CORREA, UNIVERSIDAD DE LOS ANDES, PABLO R. STEVENSON, UNIVERSIDAD DE LOS ANDES, MARIA NATALIA UMAÑA, UNIVERSITY OF MICHIGAN, LUIZ DE SOUZA COELHO, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, DIÓGENES DE ANDRADE LIMA FILHO, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, RAFAEL P. SALOMÃO, UNIVERSIDADE FEDERAL RURAL DA AMAZÔNIA, IÊDA LEÃO DO AMARAL, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, FLORIAN WITTMANN, KARLSRUHE INSTITUTE OF TECHNOLOGY, FRANCISCA DIONÍZIA DE ALMEIDA MATOS, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, CAROLINA VOLKMER DE CASTILHO, CPAF-RR, OLIVER L. PHILLIPS, UNIVERSITY OF LEEDS, JUAN ERNESTO GUEVARA, UNIVERSIDAD DE LAS AMÉRICAS, MARCELO DE JESUS VEIGA CARIM, INSTITUTO DE PESQUISAS CIENTÍFICAS E TECNOLÓGICAS DO AMAPÁ, WILLIAM E. MAGNUSSON, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, DANIEL SABATIER, UNIVERSITÉ DE MONTPELLIER, JEAN-FRANÇOIS MOLINO, UNIVERSITÉ DE MONTPELLIER, MARIANA VICTÓRIA IRUME, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, MARIA PIRES MARTINS, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, JOSÉ RENAN DA SILVA GUIMARÃES, AMCEL AMAPÁ FLORESTAL E CELULOSE, OLAF S. BÁNKI, NATURALIS BIODIVERSITY CENTER, MARIA TERESA FERNANDEZ PIEDADE, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, NIGEL C. A. PITMAN, THE FIELD MUSEUM, ABEL MONTEAGUDO MENDOZA, UNIVERSIDAD NACIONAL DE SAN ANTONIO ABAD DEL CUSCO, JOSÉ FERREIRA RAMOS, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, BRUNO GARCIA LUIZE, UNIVERSIDADE ESTADUAL DE CAMPINAS, EVLYN MÁRCIA MORAES DE LEÃO NOVO, INSTITUTO NACIONAL DE PESQUISAS ESPACIAIS, PERCY NÚÑEZ VARGAS, UNIVERSIDAD NACIONAL DE SAN ANTONIO ABAD DEL CUSCO, THIAGO SANNA FREIRE SILVA, UNIVERSITY OF STIRLING, EDUARDO MARTINS VENTICINQUE, UNIVERSIDADE FEDERAL DO RIO GRANDE DO NORTE, ANGELO GILBERTO MANZATTO, UNIVERSIDADE FEDERAL DE RONDÔNIA, NEIDIANE FARIAS COSTA REIS, UNIVERSIDADE FEDERAL DE RONDÔNIA, JOHN W. TERBORGH, UNIVERSITY OF FLORIDA, KATIA REGINA CASULA, UNIVERSIDADE FEDERAL DE RONDÔNIA, EURIDICE N. HONORIO CORONADO, INSTITUTO DE INVESTIGACIONES DE LA AMAZONÍA PERUANA, JUAN CARLOS MONTERO, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, JOCHEN SCHÖNGART, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, DAIRON CÁRDENAS LÓPEZ, INSTITUTO SINCHI, FLÁVIA R. C. COSTA, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, ADRIANO COSTA QUARESMA, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, CHARLES EUGENE ZARTMAN, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, TIMOTHY J. KILLEEN, AGTECA-AMAZONICA, BEATRIZ S. MARIMON, UNIVERSIDADE DO ESTADO DE MATO GROSSO, BEN HUR MARIMON-JUNIOR, UNIVERSIDADE DO ESTADO DE MATO GROSSO, RODOLFO VASQUEZ, JARDÍN BOTÁNICO DE MISSOURI, BONIFACIO MOSTACEDO, UNIVERSIDAD AUTÓNOMA GABRIEL RENÉ MORENO, LAYON O. DEMARCHI, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, TED R. FELDPAUSCH, UNIVERSITY OF LEEDS, RAFAEL L. ASSIS, UNIVERSITY OF OSLO, CHRISTOPHER BARALOTO, FLORIDA INTERNATIONAL UNIVERSITY, JULIEN ENGEL, UNIVERSITÉ DE MONTPELLIER, PASCAL PETRONELLI, CENTRE DE COOPÉRATION INTERNATIONALE EN RECHERCHE AGRONOMIQUE POUR LE DÉVELOPPEMENT, HERNÁN CASTELLANOS, UNIVERSIDAD NACIONAL EXPERIMENTAL DE GUAYANA, MARCELO BRILHANTE DE MEDEIROS, Cenargen, MARCELO FRAGOMENI SIMON, Cenargen, ANA ANDRADE, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, JOSÉ LUÍS CAMARGO, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, SUSAN G. W. LAURANCE, JAMES COOK UNIVERSITY, WILLIAM F. LAURANCE, JAMES COOK UNIVERSITY, LORENA MANIGUAJE RINCÓN, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, JULIANA SCHIETTI, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, THAIANE R. SOUSA, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, EMANUELLE DE SOUSA FARIAS, INSTITUTO LEÔNIDAS E MARIA DEANE, MARIA APARECIDA LOPES, UNIVERSIDADE FEDERAL DO PARÁ, JOSÉ LEONARDO LIMA MAGALHÃES, UNIVERSIDADE FEDERAL DO PARÁ, HENRIQUE EDUARDO MENDONÇA NASCIMENTO, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, HELDER LIMA DE QUEIROZ, INSTITUTO DE DESENVOLVIMENTO SUSTENTÁVEL MAMIRAUÁ, GERARDO A. AYMARD C., UNIVERSIDAD NACIONAL EXPERIMENTAL DE LOS LLANOS OCCIDENTALES 'EZEQUIEL ZAMORA', ROEL BRIENEN, UNIVERSITY OF LEEDS, JUAN DAVID CARDENAS REVILLA, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, IMA CÉLIA GUIMARÃES VIEIRA, MUSEU PARAENSE EMÍLIO GOELDI, BRUNO BARÇANTE LADVOCAT CINTRA, UNIVERSIDADE DE SAO PAULO, YURI OLIVEIRA FEITOSA, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, JOOST F. DUIVENVOORDEN, UNIVERSITY OF AMSTERDAM, HUGO F. MOGOLLÓN, ENDANGERED SPECIES COALITION, ALEJANDRO ARAUJO-MURAKAMI, UNIVERSIDAD AUTÓNOMA GABRIEL RENE MORENO, LEANDRO VALLE FERREIRA, MUSEU PARAENSE EMÍLIO GOELDI, JOSÉ RAFAEL LOZADA, UNIVERSIDAD DE LOS ANDES, JAMES A. COMISKEY, NATIONAL PARK SERVICE, JOSÉ JULIO DE TOLEDO, UNIVERSIDADE FEDERAL DO AMAPÁ, GABRIEL DAMASCO, UNIVERSITY OF GOTHENBURG, NÁLLARETT DÁVILA, UNIVERSIDADE ESTADUAL DE CAMPINAS, ROOSEVELT GARCÍA-VILLACORTA, CENTRO DE INNOVACIÓN CIENTÍFICA AMAZÓNICA, ALINE LOPES, UNIVERSIDADE DE BRASILIA, ALBERTO VICENTINI, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, FREDDIE C. DRAPER, UNIVERSITY OF LIVERPOOL, NICOLÁS CASTAÑO ARBOLEDA, INSTITUTO SINCHI, FERNANDO CORNEJO VALVERDE, ANDES TO AMAZON BIODIVERSITY PROGRAM, ALFONSO ALONSO, SMITHSONIAN CONSERVATION BIOLOGY INSTITUTE, FRANCISCO DALLMEIER, SMITHSONIAN CONSERVATION BIOLOGY INSTITUTE, VITOR H. F. GOMES, CENTRO UNIVERSITÁRIO DO PARÁ, DAVID NEILL, UNIVERSIDAD ESTATAL AMAZÓNICA, DANIEL P. P. DE AGUIAR, MINISTÉRIO PÚBLICO DO ESTADO DO AMAZONAS, LUZMILA ARROYO, UNIVERSIDAD AUTÓNOMA GABRIEL RENE MORENO, FERNANDA ANTUNES CARVALHO, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, FERNANDA COELHO DE SOUZA, UNIVERSITY OF LEEDS, DÁRIO DANTAS DO AMARAL, MUSEU PARAENSE EMÍLIO GOELDI, KENNETH J. FEELEY, UNIVERSITY OF MIAMI, ROGERIO GRIBEL, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, MARCELO PETRATTI PANSONATO, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, JOS BARLOW, LANCASTER UNIVERSITY, ERIKA BERENGUER, LANCASTER UNIVERSITY, JOICE NUNES FERREIRA, CPATU, PAUL V. A. FINE, UNIVERSITY OF CALIFORNIA, MARCELINO CARNEIRO GUEDES, CPAF-AP, ELIANA M. JIMENEZ, UNIVERSIDAD NACIONAL DE COLOMBIA, JUAN CARLOS LICONA, INSTITUTO BOLIVIANO DE INVESTIGACION FORESTAL, MARIA CRISTINA PEÑUELA MORA, UNIVERSIDAD REGIONAL AMAZÓNICA IKIAM, BORIS EDUARDO VILLA ZEGARRA, DIRECCÍON DE EVALUACIÓN FORESTAL Y DE FAUNA SILVESTRE, CARLOS CERÓN, UNIVERSIDAD CENTRAL DO EQUADOR, ÉMILE FONTY, UNIVERSITÉ DE MONTPELLIER, TERRY W. HENKEL, HUMBOLDT STATE UNIVERSITY, JOHN ETHAN HOUSEHOLDER, KARLSRUHE INSTITUTE OF TECHNOLOGY, PAUL MAAS, NATURALIS BIODIVERSITY CENTER, MARCOS SILVEIRA, UNIVERSIDADE FEDERAL DO ACRE, JULIANA STROPP, MUSEO NACIONAL DE CIENCIAS NATURALES, RAQUEL THOMAS, IWOKRAMA INTERNATIONAL CENTRE FOR RAIN FOREST CONSERVATION AND DEVELOPMENT, FLÁVIA MACHADO DURGANTE, KARLSRUHE INSTITUTE OF TECHNOLOGY, TIM R. BAKER, UNIVERSITY OF LEEDS, DOUG DALY, NEW YORK BOTANICAL GARDEN, ISAU HUAMANTUPA-CHUQUIMACO, UNIVERSIDAD NACIONAL AMAZÓNICA DE MADRE DE DIOS, WILLIAM MILLIKEN, ROYAL BOTANIC GARDENS, TOBY PENNINGTON, UNIVERSITY OF EXETER, MARCOS RÍOS PAREDES, SERVICIOS DE BIODIVERSIDAD EIRL, PARDO MOLINA, UNIVERSIDAD AUTÓNOMA DEL BENI JOSÉ BALLIVIÁN, ALFREDO FUENTES, UNIVERSIDAD MAYOR DE SAN ANDRÉS, BENTE KLITGAARD, ROYAL BOTANIC GARDENS, JOSÉ LUIS MARCELO PEÑA, UNIVERSIDAD NACIONAL DE JAÉN, CARLOS A. PERES, UNIVERSITY OF EAST ANGLIA, MILES R. SILMAN, WAKE FOREST UNIVERSITY, J. SEBASTIÁN TELLO, MISSOURI BOTANICAL GARDEN, WEGLIANE CAMPELO, UNIVERSIDADE FEDERAL DO AMAPÁ, JEROME CHAVE, UNIVERSITÉ PAUL SABATIER, ANTHONY DI FIORE, UNIVERSITY OF TEXAS AT AUSTIN, RENATO RICHARD HILÁRIO, UNIVERSIDADE FEDERAL DO AMAPÁ, JUAN FERNANDO PHILLIPS, FUNDACIÓN PUERTO RASTROJO, GONZALO RIVAS-TORRES, UNIVERSIDAD SAN FRANCISCO DE QUITO, TINDE R. VAN ANDEL, NATURALIS BIODIVERSITY CENTER, PATRICIO VON HILDEBRAND, FUNDACIÓN ESTACIÓN DE BIOLOGÍA, LUCIANA DE OLIVEIRA PEREIRA, UNIVERSITY OF EXETER, EDELCILIO MARQUES BARBOSA, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, FLÁVIA RODRIGUES BARBOSA, UNIVERSIDADE FEDERAL DO MATO GROSSO, LUIZ CARLOS DE MATOS BONATES, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, RAINIELLEN DE SÁ CARPANEDO, UNIVERSIDADE FEDERAL DO MATO GROSSO, HILDA PAULETTE DÁVILA DOZA, SERVICIOS DE BIODIVERSIDAD EIRL, RICARDO ZÁRATE GÓMEZ, INSTITUTO DE INVESTIGACIONES DE LA AMAZONÍA PERUANA, THERANY GONZALES, ACEER FOUNDATION, GEORGE PEPE GALLARDO GONZALES, SERVICIOS DE BIODIVERSIDAD EIRL, BRUCE HOFFMAN, AMAZON CONSERVATION TEAM, ANDRÉ BRAGA JUNQUEIRA, UNIVERSITAT AUTÒNOMA DE BARCELONA, YADVINDER MALHI, UNIVERSITY OF OXFORD, IRES PAULA DE ANDRADE MIRANDA, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, LINDER FELIPE MOZOMBITE PINTO, SERVICIOS DE BIODIVERSIDAD EIRL, ADRIANA PRIETO, UNIVERSIDAD NACIONAL DE COLOMBIA, DOMINGOS DE JESUS RODRIGUES, UNIVERSIDADE FEDERAL DO MATO GROSSO, AGUSTÍN RUDAS, UNIVERSIDAD NACIONAL DE COLOMBIA, ADEMIR ROBERTO RUSCHEL, CPATU, NATALINO SILVA, UNIVERSIDADE FEDERAL RURAL DA AMAZÔNIA, CÉSAR I. A. VELA, UNIVERSIDAD NACIONAL DE SAN ANTONIO ABAD DEL CUSCO, VINCENT ANTOINE VOS, UNIVERSIDAD AUTÓNOMA DEL BENI JOSÉ BALLIVIÁN, STANFORD ZENT, INSTITUTO VENEZOLANO DE INVESTIGACIONES CIENTÍFICAS, EGLEÉ L. ZENT, INSTITUTO VENEZOLANO DE INVESTIGACIONES CIENTÍFICAS, JANAÍNA COSTA NORONHA, UNIVERSIDADE FEDERAL DO MATO GROSSO, BIANCA WEISS ALBUQUERQUE, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, ANGELA CANO, UNIVERSIDAD DE LOS ANDES, YRMA ANDREINA CARRERO MÁRQUEZ, UNIVERSIDAD DE LOS ANDES, JANAINA BARBOSA PEDROSA COSTA, BERNARDO MONTEIRO FLORES, UNIVERSIDADE FEDERAL DE SANTA CATARINA, DAVID GALBRAITH, UNIVERSITY OF LEEDS, MILENA HOLMGREN, WAGENINGEN UNIVERSITY & RESEARCH, MICHELLE KALAMANDEEN, MCMASTER UNIVERSITY, MARCELO TRINDADE NASCIMENTO, UNIVERSIDADE ESTADUAL DO NORTE FLUMINENSE, ALEXANDRE A. OLIVEIRA, UNIVERSIDADE DE SAO PAULO, HIRMA RAMIREZ-ANGULO, UNIVERSIDAD DE LOS ANDES, MAIRA ROCHA, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, VERIDIANA VIZONI SCUDELLER, UNIVERSIDADE FEDERAL DO AMAZONAS, RODRIGO SIERRA, GEOIS, MILTON TIRADO, GEOIS, GEERTJE VAN DER HEIJDEN, UNIVERSITY OF NOTTINGHAM, EMILIO VILANOVA TORRE, UNIVERSIDAD DE LOS ANDES, CORINE VRIESENDORP, THE FIELD MUSEUM, MAIHYRA MARINA POMBO, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, MANUEL AUGUSTO AHUITE REATEGUI, PLUSPRETOL, CLÁUDIA BAIDER, UNIVERSIDADE DE SAO PAULO, HENRIK BALSLEV, AARHUS UNIVERSITY, SASHA CÁRDENAS, UNIVERSIDAD DE LOS ANDES, LUISA FERNANDA CASAS, UNIVERSIDAD DE LOS ANDES, WILLIAM FARFAN-RIOS, UNIVERSIDAD NACIONAL DE SAN ANTONIO ABAD DEL CUSCO, CID FERREIRA, INSTITUTO NACIONAL DE PESQUISAS DA AMAZÔNIA, REYNALDO LINARES-PALOMINO, SMITHSONIAN CONSERVATION BIOLOGY INSTITUTE, CASIMIRO MENDOZA, UNIVERSIDAD MAYOR DE SAN SIMON, ITALO MESONES, UNIVERSITY OF CALIFORNIA, ARMANDO TORRES-LEZAMA, UNIVERSIDAD DE LOS ANDES, LIGIA ESTELA URREGO GIRALDO, UNIVERSIDAD NACIONAL DE COLOMBIA, DANIEL VILLARROEL, UNIVERSIDAD AUTÓNOMA GABRIEL RENE MORENO, RODERICK ZAGT, TROPENBOS INTERNATIONAL, GERMAINE ALEXANDER PARADA, UNIVERSIDAD AUTÓNOMA GABRIEL RENE MORENO, MIGUEL N. ALEXIADES, UNIVERSITY OF KENT, EDMAR ALMEIDA DE OLIVEIRA, UNIVERSIDADE DO ESTADO DE MATO GROSSO, KARINA GARCIA-CABRERA, WAKE FOREST UNIVERSITY, LIONEL HERNANDEZ, UNIVERSIDAD NACIONAL EXPERIMENTAL DE GUAYANA, WALTER PALACIOS CUENCA, UNIVERSIDAD TÉCNICA DEL NORTE, SUSAMAR PANSINI, UNIVERSIDADE FEDERAL DE RONDÔNIA, DANIELA PAULETTO, UNIVERSIDADE FEDERAL DO OESTE DO PARÁ, FREDDY RAMIREZ AREVALO, UNIVERSIDAD NACIONAL DE LA AMAZONIA PERUANA, ADEILZA FELIPE SAMPAIO, UNIVERSIDADE FEDERAL DE RONDÔNIA, ELVIS H. VALDERRAMA SANDOVAL, UNIVERSIDAD NACIONAL DE LA AMAZONIA PERUANA, LUIS VALENZUELA GAMARRA, JARDÍN BOTÁNICO DE MISSOURI, HANS TER STEEGE, NATURALIS BIODIVERSITY CENTER., University of St Andrews. Geography & Sustainable Development, University of St Andrews. School of Geography & Sustainable Development, Universidad de los Andes [Bogota] (UNIANDES), University of Michigan [Ann Arbor], University of Michigan System, Instituto Nacional de Pesquisas da Amazônia (INPA), Universidade Federal Rural da Amazônia (UFRA), Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Missouri Botanical Garden, and Naturalis Biodiversity Center [Leiden]
Subjects: Geography & travel, [SDV.BID.SPT]Life Sciences [q-bio]/Biodiversity/Systematics, Phylogenetics and taxonomy, [SDV.EE.ECO]Life Sciences [q-bio]/Ecology, environment/Ecosystems, Florestas inundadas, flooded forests, terra-firme forests, Ecology, Evolution, Behavior and Systematics, ddc:910, Disperser‐availability hypothesis, Global and Planetary Change, Resource‐availability hypothesis, Ecology, anemochory, Terra‐firme forests, resource-availability hypothesis, DAS, [SDV.BV.BOT]Life Sciences [q-bio]/Vegetal Biology/Botanics, PE&RC, dispersal agents, Biosystematiek, endozoochory, Floresta de terra firme, MCP, Floresta Pluvial Tropical, Wildlife Ecology and Conservation, synzoochory, Biosystematics, hydrochory, ARBORIZAÇÃO, Rain forests, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, disperser-availability hypothesis, Amazonian rain forests
Abstract: DFC acknowledges financial support from the Colombian institution Departamento Administrativo de Ciencia, Tecnología e Innovación COLCIENCIAS (Convocatoria 529 para estudios de doctorado en el exterior). PRS acknowledges the Faculty of Sciences, Universidad de los Andes, for financial support (INV-2021-128-2268). Aim : To investigate the geographic patterns and ecological correlates in the geographic distribution of the most common tree dispersal modes in Amazonia (endozoochory, synzoochory, anemochory and hydrochory). We examined if the proportional abundance of these dispersal modes could be explained by the availability of dispersal agents (disperser‐availability hypothesis) and/or the availability of resources for constructing zoochorous fruits (resource‐availability hypothesis). Time period : Tree‐inventory plots established between 1934 and 2019. Major taxa studied : Trees with a diameter at breast height (DBH) ≥ 9.55 cm. Location : Amazonia, here defined as the lowland rain forests of the Amazon River basin and the Guiana Shield. Methods : We assigned dispersal modes to a total of 5433 species and morphospecies within 1877 tree‐inventory plots across terra‐firme, seasonally flooded, and permanently flooded forests. We investigated geographic patterns in the proportional abundance of dispersal modes. We performed an abundance‐weighted mean pairwise distance (MPD) test and fit generalized linear models (GLMs) to explain the geographic distribution of dispersal modes. Results : Anemochory was significantly, positively associated with mean annual wind speed, and hydrochory was significantly higher in flooded forests. Dispersal modes did not consistently show significant associations with the availability of resources for constructing zoochorous fruits. A lower dissimilarity in dispersal modes, resulting from a higher dominance of endozoochory, occurred in terra‐firme forests (excluding podzols) compared to flooded forests. Main conclusions : The disperser‐availability hypothesis was well supported for abiotic dispersal modes (anemochory and hydrochory). The availability of resources for constructing zoochorous fruits seems an unlikely explanation for the distribution of dispersal modes in Amazonia. The association between frugivores and the proportional abundance of zoochory requires further research, as tree recruitment not only depends on dispersal vectors but also on conditions that favour or limit seedling recruitment across forest types. Publisher PDF
Published: 2023

38. Large cell triaxial tests of a partially saturated soil with vegetation

Author: Fraccica, Alessandro, Romero, Enrique, Fourcaud, Thierry, Italian National Institute for Environmental Protection and Research (ISPRA) [ITALY], Universitat Politècnica de Catalunya [Barcelona] (UPC), Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Département Systèmes Biologiques (Cirad-BIOS), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), and International Society for Soil Mechanics and Geotechnical Engineering (ISSMGE)
Subjects: Soil, Root Systems, Root reinforcement, General Earth and Planetary Sciences, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, General Environmental Science
Abstract: The use of vegetation roots as a nature-based solution against landslides and erosion requires the definition of sample preparation protocols and adoption of equipment that allows testing representative elementary volumes of the whole soil-root system. For this purpose, large cell triaxial compression tests were carried out on fallow and vegetated samples at different degrees of saturation. Samples were prepared by static compaction of a silty sand and seeded with Cynodon dactylon. The hydraulic state during plants growth was controlled and reproduced on bare soil samples. After isotropic compressions, the shearing phase was carried out at very low confining stresses (i.e., below 50 kPa). Tests were deemed to be comparable by assessing the normalised volume of roots with respect to soil, after shearing. For a given confining stress, soil samples with higher matric suction exhibited higher shear strength, furtherly increased by roots. The stress-strain behaviour observed in the vegetated soil systematically changed, when comparing tests at low and high matric suction values, due to the different mechanisms of vegetation reinforcement depending on the hydraulic state at the soil-root interface. The results were successfully interpreted within a failure criterion and skeleton stress framework for partially saturated soils, considering soil suction, degree of saturation, soil microstructure and the normalised volume of roots.
Published: 2023

39. Virion-associated nucleic acid-based metagenomics: a decade of advances in molecular characterization of plant viruses

Author: Moubset, Oumaima, François, Sarah, Maclot, François, Palanga, Essowé, Julian, Charlotte, Claude, Lisa, Fernandez, Emmanuel, Rott, Philippe, Daugrois, Jean-Heinrich, Antoine-Lorquin, Aymeric, Bernardo, Pauline, Blouin, Arnaud G., Temple, Coline, Kraberger, Simona, Fontenele, Rafaela S, Harkins, Gordon William, Ma, Yuxin, Marais, Armelle, Candresse, Thierry, Ben Chehida, Sélim, Lefeuvre, Pierre, Lett, Jean-Michel, Varsani, Arvind, Massart, Sébastien, Ogliastro, Mylène, Martin, Darren Patrick, Filloux, Denis, Roumagnac, Philippe, Plant Health Institute of Montpellier (UMR PHIM), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut de Recherche pour le Développement (IRD)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Montpellier, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Université de Montpellier (UM), Département Systèmes Biologiques (Cirad-BIOS), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), University of Oxford, Gembloux Agro-Bio Tech [Gembloux], Université de Liège, Institut Togolais de Recherche Agronomique (ITRA), Diversité, Génomes & Interactions Microorganismes - Insectes [Montpellier] (DGIMI), Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Enza Zaden, Agroscope, Arizona State University [Tempe] (ASU), University of the Western Cape (UWC), Biologie du fruit et pathologie (BFP), Université de Bordeaux (UB)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Peuplements végétaux et bioagresseurs en milieu tropical (UMR PVBMT), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut de Recherche pour le Développement (IRD)-Université de La Réunion (UR)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), University of Cape Town, European Union (ERDF, contract GURDT I2016-1731-0006632), Conseil Régional de La Réunion, project SEVIPLANT from Federal Public 17 Service, Public Health, Belgium, Grant Agreement no. RT 18/3, ANR-19-CE35-0008,PHYTOVIRUS,Mesure et cartographie de la richesse des virus des plante à l'échelle de l'écosytème(2019), and European Project: 813542,INEXTVIR
Subjects: Identification, Ecology, viruses, [SDV]Life Sciences [q-bio], Virion, Virus des végétaux, [SDV.BC.BC]Life Sciences [q-bio]/Cellular Biology/Subcellular Processes [q-bio.SC], Plants, génomique, Plant Viruses, [SDV.BA.ZI]Life Sciences [q-bio]/Animal biology/Invertebrate Zoology, Nucleic Acids, Virology, [SDV.MP.VIR]Life Sciences [q-bio]/Microbiology and Parasitology/Virology, Metagenomics, Pathogen Detection, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, Ecosystem, H20 - Maladies des plantes, Plant Diseases
Abstract: Over the last decade, viral metagenomic studies have resulted in the discovery of thousands of previously unknown viruses. These studies are likely to play a pivotal role in obtaining an accurate and robust understanding of how viruses affect the stability and productivity of ecosystems. Among the metagenomics-based approaches that have been developed since the beginning of the 21st century, shotgun metagenomics applied specifically to virion-associated nucleic acids (VANA) has been used to disentangle the diversity of the viral world. We summarize herein the results of 24 VANA-based studies, focusing on plant and insect samples conducted over the last decade (2010 to 2020). Collectively, viruses from 85 different families were reliably detected in these studies, including capsidless RNA viruses that replicate in fungi, oomycetes, and plants. Finally, strengths and weaknesses of the VANA approach are summarized and perspectives of applications in detection, epidemiological surveillance, environmental monitoring, and ecology of plant viruses are provided. [Formula: see text] Copyright © 2022 The Author(s). This is an open access article distributed under the CC BY-NC-ND 4.0 International license.
Published: 2022

40. Honoring Sabin Berthelot: Nomenclature and botanical history of Berthelotia DC. (Asteraceae, Inuleae)

Author: Andre A. Naranjo, Rahul R. Pathirickal, Kanchi N. Gandhi, Piero G. Delprete, Riccardo M. Baldini, Arnoldo Santos-Guerra, Lázaro Sánchez-Pinto, Javier Francisco-Ortega, Florida International University [Miami] (FIU), Harvard University Herbaria, Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Herbier de Guyane - IRD, Institut de Recherche pour le Développement (IRD [Guyane]), and Università degli Studi di Firenze = University of Florence (UniFI)
Subjects: Ecology, Nomenclature, India, Canary Islands, Plant Science, Asteraceae, [SDV.BV.BOT]Life Sciences [q-bio]/Vegetal Biology/Botanics, Sabin Berthelot, Berthelotia, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, Mexico, Ecology, Evolution, Behavior and Systematics, Sonora Desert, USA, Phylogeny
Abstract: International audience; The genus Berthelotia DC. (presently a synonym of the accepted name Pluchea Cass.), Asteraceae, Inuleae has been regarded as comprising two species, B. lanceolata DC. and B. sericea (Nutt.) Rydb. It honors the French naturalist Sabin Berthelot (1794-1880) for his contribution to the studies of the flora and fauna of the Canary Islands. Under the leadership of Philip B. Webb (1793-1854), Berthelot co-authored the most important work pertinent to the natural history of this archipelago: Histoire Naturelle des Îles Canaries. The nomenclature of Berthelotia and its associated names are revisited here. The holotype of Polypappus sericeus Nutt. (K000974653) was located, and lectotypes were assigned to B. lanceolata (G00450458) and B. lanceolata var. senegalensis DC. (G00452584). Phylogenetic analyses based on nucleotide sequences of the nrDNA ITS were conducted focusing on members of what is known as the Clade J of the Inuleae. A well-supported clade (100% P.P.) that we have labeled as "Clade I" was uncovered, and it is composed of three species that belong to the Pluchea indica Clade plus P. dioscoridis and P. ovalis; but this lineage did not support a previous hypothesis to include P. lanceolata. The two species of Berthelotia did not form a monophyletic group and seem to be distantly related; furthermore, none of these two taxa is sister to 208 Andre A. Naranjo et al. Tessaria, a South American genus that has been suggested to be a close relative to Berthelotia. Ethnobotanical uses of B. lanceolata and B. sericea are reviewed.
Published: 2022

41. Analysis of state-transition graphs of ecosystems using model-checking

Author: Thomas, Colin, Informatique, BioInformatique, Systèmes Complexes (IBISC), Université d'Évry-Val-d'Essonne (UEVE)-Université Paris-Saclay, Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Université Paris-Saclay, Franck Pommereau, Cédric Gaucherel - directeur de recherche à INRAE, Université d'Évry-Val-d'Essonne (UEVE), Université d'Evry Val d'Essonne, Franck Pommereau(franck.pommereau@ibisc.univ-evry.fr), and Cédric Gaucherel, Co-encadrant
Subjects: [SDV.EE]Life Sciences [q-bio]/Ecology, environment, Fairness, Symbolic techniques, Formal methods, Model-Checking, Graphes état-Transition, State-Transition graphs, Ecosystems, Modelling in ecology, Méthodes formelles, Temporal logics, [INFO.INFO-FL]Computer Science [cs]/Formal Languages and Automata Theory [cs.FL], [SDE]Environmental Sciences, Arctl, [MATH]Mathematics [math], Équité
Abstract: The entire world is nowadays undergoing major ecological crises with the current mass extinction of a wide range of living forms. Indeed, between 20% to 50% of all living species may extinct in the 21st century. To understand these phenomenons, some ecologists use formal methods to model ecosystems and analyse their possible trajectories [Gaucherel, Pommereau 2019]. A major difficulty in this approach is the combinatorics that leads to models with huge state spaces. Symbolic techniques like decisions diagrams allow to efficiently compute these state spaces and analyse them automatically [Thierry-Mieg 2016]. However, this does not help with the understanding of the models by the ecologists because such large state spaces remain opaque to manual exploration. The techniques developed so far to explore such large state spaces are based on their presentation into topological components (strongly connected components, deadlocks, basins of attraction), but they do not scale to models with a large number of components, or with very large components, which is the case of the models that require symbolic techniques. This thesis aims at developing analysis techniques for these large state spaces relying on question of ecological nature, that should lead to splits of the state space into macro-trajectories interpretable by an ecologist. To do so, it is expected to start from, on the one hand, an existing modelling language [Gaucherel, Pommereau 2019] to formulate queries in the terms used by the modeller, and, on the other hand, on temporal logics to allow the expression of trajectories the modeller wants to study in particular (or conversely, those she wants to ignore for her exploration space). These requests should address both the states and the transitions in the system, which are the two basic elements handled by the modeller. These requests will have to be complemented with analysis techniques of the components allowing to present some of their significant characteristics in order to guide the modeller in the refinement of his requests. On the long term, the goal is this to propose efficient exploration methods of large state spaces, guided by ecological queries that an ecologist modeller is able to express. Finally, the methods developed during the thesis will have to be applied on cases studies about ecosystems studied in Cédric Gaucherel's team.; Le monde subit actuellement des crises écologiques majeures avec l'extinction de masse d'un très grand nombre d'espèces vivantes. De l'ordre de 20 à 50% des espèces vivant au 21ème siècle devrait s'éteindre au cours du siècle. Pour comprendre ces phénomènes, des écologues utilisent des méthodes formelles pour modéliser les écosystèmes et analyser leurs trajectoires possibles [Gaucherel, Pommereau 2019]. Une difficulté majeure dans cette approche est la combinatoire qui engendre des modèles avec des espaces d'états immenses. Les techniques symboliques à base de diagrammes de décisions permettent de calculer efficacement ces espaces d'états et de les analyser de façon automatique [Thierry-Mieg 2016]. Cependant, cela n'aide pas à la compréhension de ces modèles par les écologues car de grands espaces d'états restent opaques à l'exploration manuelle. Les techniques développées jusqu'à présent pour permettre une telle exploration de grands espaces d'états se basent sur une présentation des espaces d'états selon ses composantes topologiques (composantes fortement connexes, blocages, bassins d'attractions), mais elle ne passent pas à l'échelle de modèles ayant un grand nombre de composantes, ou des composantes de grande taille, ce qui est le tas des modèles nécessitant des techniques symboliques L'objectif de la thèse est de développer des techniques d'analyse de ces grands espaces d'états en s'appuyant sur des questions d'ordre écologique, qui devront se traduire par des découpages de l'espace d'états en macro-trajectoires interprétables par des écologues. Pour cela, il faudra se baser d'une part sur le langage de modélisation existant [Gaucherel, Pommereau 2019] pour formuler des requêtes dans les termes utilisés par le modélisateur, et d'autre part sur des logiques temporelles permettant d'exprimer des trajectoires sur lesquelles le modélisateur souhaite porter son attention (ou au contraire qu'il souhaite éliminer de son espace d'exploration). Ces requêtes devront pouvoir porter à la fois sur les états et sur les transitions du système, qui sont les deux éléments de base manipulés par le modélisateur. Ces requêtes devront être complétés par des méthodes d'analyse des composantes symboliques permettant d'en présenter des caractéristiques pertinentes pour le modélisateur afin de le guider dans le raffinement de ses requêtes. Il s'agit donc à terme de proposer des méthodes d'exploration efficaces de grands espaces d'états, guidées par des questions écologiques formulables par un modélisateur écologue. Enfin, les méthodes développées devront être appliquées sur des études de cas portant sur des écosystèmes étudiés dans l'équipe de Cédric Gaucherel.
Published: 2022

42. The evolutionary process of invasion in the fall armyworm (Spodoptera frugiperda)

Author: Sudeeptha Yainna, Wee Tek Tay, Karine Durand, Estelle Fiteni, Frédérique Hilliou, Fabrice Legeai, Anne-Laure Clamens, Sylvie Gimenez, R. Asokan, C. M. Kalleshwaraswamy, Sharanabasappa S. Deshmukh, Robert L. Meagher, Carlos A. Blanco, Pierre Silvie, Thierry Brévault, Anicet Dassou, Gael J. Kergoat, Thomas Walsh, Karl Gordon, Nicolas Nègre, Emmanuelle d’Alençon, Kiwoong Nam, Diversité, Génomes & Interactions Microorganismes - Insectes [Montpellier] (DGIMI), Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Agroécologie et Intensification Durables des cultures annuelles (UPR AIDA), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), CSIRO Agriculture and Food (CSIRO), Black Mountain Laboratories, Commonwealth Scientific and Industrial Research Organisation [Canberra] (CSIRO), Institut Sophia Agrobiotech (ISA), Université Nice Sophia Antipolis (1965 - 2019) (UNS), COMUE Université Côte d'Azur (2015-2019) (COMUE UCA)-COMUE Université Côte d'Azur (2015-2019) (COMUE UCA)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université Côte d'Azur (UCA), Institut de Génétique, Environnement et Protection des Plantes (IGEPP), Université de Rennes (UR)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Rennes Angers, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), Institut de Recherche en Informatique et Systèmes Aléatoires (IRISA), Université de Rennes (UR)-Institut National des Sciences Appliquées - Rennes (INSA Rennes), Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Université de Bretagne Sud (UBS)-École normale supérieure - Rennes (ENS Rennes)-Institut National de Recherche en Informatique et en Automatique (Inria)-CentraleSupélec-Centre National de la Recherche Scientifique (CNRS)-IMT Atlantique (IMT Atlantique), Institut Mines-Télécom [Paris] (IMT)-Institut Mines-Télécom [Paris] (IMT), Centre de Biologie pour la Gestion des Populations (UMR CBGP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Montpellier, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Université de Montpellier (UM), Indian Institute of Horticultural Research [Bangalore] (ICAR), University of Agricultural and Horticultural Sciences [Shivamogga] (UAHS), USDA-ARS : Agricultural Research Service, USDA Agricultural Research Service [Beltsville, Maryland], Plant Health Institute of Montpellier (UMR PHIM), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut de Recherche pour le Développement (IRD)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Montpellier, Ecole Nationale Supérieure des Biosciences et Biotechnologies Appliquées (ENSBBA), Plateforme bioinformatique GenOuest [Rennes], Université de Rennes (UR)-Plateforme Génomique Santé Biogenouest®-Inria Rennes – Bretagne Atlantique, Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria)-GESTION DES DONNÉES ET DE LA CONNAISSANCE (IRISA-D7), Institut Mines-Télécom [Paris] (IMT)-Institut Mines-Télécom [Paris] (IMT)-Université de Rennes (UR)-Institut National des Sciences Appliquées - Rennes (INSA Rennes), Institut Mines-Télécom [Paris] (IMT)-Institut Mines-Télécom [Paris] (IMT)-Institut de Recherche en Informatique et Systèmes Aléatoires (IRISA), Institut Mines-Télécom [Paris] (IMT)-Institut Mines-Télécom [Paris] (IMT)-Institut National des Sciences Appliquées - Rennes (INSA Rennes), Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Université de Bretagne Sud (UBS)-École normale supérieure - Rennes (ENS Rennes)-CentraleSupélec-Centre National de la Recherche Scientifique (CNRS)-IMT Atlantique (IMT Atlantique), This work (ID 1702-018, given to KN) was publicly funded through ANR (the French National Research Agency) under the 'Investissements d'avenir' programme with the reference ANR-10-LABX-0001 Labex Agro and coordinated by Agropolis Fondation under the frame of I-SITE MUSE (ANR-16-IDEX-0006). In addition, a grant from the department of Sante des Plantes et Environnement at Institut national de la recherche agronomique for KN ( adaptivesv). This work was also financially supported by EUPHRESCO (FAW-spedcom, given to Anne-Nathalie Volkoff) and by CSIRO Health & biosecurity (given to WTT, TW, and KG). SY was supported by a CIRAD-INRAE PhD fellowship. We are grateful to the genotoul bioinformatics platform Toulouse Occitanie (Bioinfo Genotoul, https://doi.org/10.15454/1.557236932896116 7E12) for providing help and/or computing and/or storage resources., ANR-10-LABX-0001,AGRO,Agricultural Sciences for sustainable Development(2010), and ANR-16-IDEX-0006,MUSE,MUSE(2016)
Subjects: Multidisciplinary, MESH: Humans, MESH: Spodoptera, MESH: Asia, MESH: Africa, Western, Spodoptera frugiperda, MESH: Animals, MESH: Africa, [INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM], MESH: Phylogeny, H10 - Ravageurs des plantes
Abstract: The resequencing dataset generated during the current study is available in the NCBI SRA (Accession Number: PRJNA639295).Computer programming scripts used in this study are available on GitHub (https://github.com/kiwoong-nam/FAW_invasion).; International audience; The fall armyworm (FAW; S podoptera frugiperda ) is one of the major agricultural pest insects. FAW is native to the Americas, and its invasion was first reported in West Africa in 2016. Then it quickly spread through Africa, Asia, and Oceania, becoming one of the main threats to corn production. We analyzed whole genome sequences of 177 FAW individuals from 12 locations on four continents to infer evolutionary processes of invasion. Principal component analysis from the TPI gene and whole genome sequences shows that invasive FAW populations originated from the corn strain. Ancestry coefficient and phylogenetic analyses from the nuclear genome indicate that invasive populations are derived from a single ancestry, distinct from native populations, while the mitochondrial phylogenetic tree supports the hypothesis of multiple introductions. Adaptive evolution specific to invasive populations was observed in detoxification, chemosensory, and digestion genes. We concluded that extant invasive FAW populations originated from the corn strain with potential contributions of adaptive evolution.
Published: 2022

43. Challenges and resilience of an indigenous farming system during wartime (Tigray, North Ethiopia)

Author: Tesfaalem Ghebreyohannes, Jan Nyssen, Emnet Negash, Hailemariam Meaza, Zbelo Tesfamariam, Amaury Frankl, Biadgilgn Demissie, Bert Van Schaeybroeck, Alem Redda, Sofie Annys, Fetien Abay, Mekelle University, Universiteit Gent = Ghent University (UGENT), Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), and Institut Royal Météorologique de Belgique [Bruxelles] - Royal Meteorological Institute (IRM)
Subjects: Environmental Engineering, AGRICULTURE, Famine, [SDE.MCG]Environmental Sciences/Global Changes, WATER CONSERVATION, Cereal cultivation Fallow land Famine Indigenous knowledge Subsistence farming Tigray War, Tigray War, Cereal cultivation, HIGHLANDS, SOIL, VARIABILITY, FOOD, Indigenous knowledge, Earth and Environmental Sciences, GAPS, Fallow land, Ethiopia, SMALLHOLDER FARMERS, RAINFALL, Subsistence farming, Agronomy and Crop Science, CONFLICT
Abstract: Due to war conditions, the local farmers had to largely rely on their own crop production, mainly by subsistence farming, in Tigray, North Ethiopia. We assessed the crop stands in 2021 and evaluated the level of resilience of the indigenous farming system. Quantitative data were collected from 161 farm parcels in various ecoregions of this tropical mountain region, in order to detect the share of sown land, crop types, and their status. This participatory monitoring was accompanied by semi-structured interviews. Farmers cultivated their farms late, left it uncultivated or marginally sowed oil crops as improved fallow (28%), due to lack of farming tools, oxen, fertilizer, seeds, or manpower. As compared to peace years, only few lands were sown with sorghum as there was active warfare in the sorghum planting period. The relatively good stands of wheat and barley (47%) are in line with the farmers’ priority given to cereals. Teff got a large land share because it could be sown up to the middle of the main rainy season and because farmers had consumed the seeds of their major cereal crops (wheat and barley) when hiding for warfare. Seeds left from consumption were only sown by late June, when troops had retreated, and the communities could revive. With almost no external support, the local farming system has proven to be remarkably resilient, relying on indigenous knowledge and local practices, block rotation, manure, improved fallow, changes in relative importance of crops, seed exchange, and support for one another. This is the first analysis of the socio-agronomic roots of the 2021–2022 Tigray hunger crisis, with a cereal harvest that could not at all sustain the local population as the planting season had been largely missed. The ability of the indigenous farming system to partially rebounce in times of autarky is another novel finding.
Published: 2022

44. Dendrometric data from the silvicultural scenarios developed by Office National des Forêts (ONF) in France: a tool for applied research and carbon storage estimates

Author: Salomé Fournier, Thierry Sardin, Philippe Dreyfus, Didier Francois, Xavier Mandret, Marion Simeoni, Jean-Pierre Renaud, Emila Akroume, Alain Bouvet, Alain Berthelot, Holger Wernsdörfer, Miguel Riviere, Julien Sainte-Marie, Sandrine Breteau-Amores, François De Coligny, Christine Deleuze, ONF, Office National des Forêts - Département Recherche, Fontainebleau, France, Université Paris Diderot - Paris 7 (UPD7), Office National des Forêts (National expert in silviculture), Office national des forêts (ONF), Institut Technologique Forêt Cellulose Bois-construction Ameublement (FCBA), SILVA (SILVA), AgroParisTech-Université de Lorraine (UL)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Bureau d'Économie Théorique et Appliquée (BETA), AgroParisTech-Université de Strasbourg (UNISTRA)-Université de Haute-Alsace (UHA) Mulhouse - Colmar (Université de Haute-Alsace (UHA))-Université de Lorraine (UL)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), and The National Forests Office funded this work and the previous publications on which it is based
Subjects: Ecology, Forest management, Mitigation, [QFIN]Quantitative Finance [q-fin], [SDE]Environmental Sciences, Forestry, Silviculture, [INFO.INFO-MO]Computer Science [cs]/Modeling and Simulation, Simulation, Forest dynamics, Carbon, [SHS]Humanities and Social Sciences
Abstract: Key message We provide a database of 52 silvicultural scenarios recommended in French public forests including relevant dendrometric variables and metrics for carbon accounting. The dataset is available at https://doi.org/10.57745/QARRFS. Associated metadata are available at https://metadata-afs.nancy.inra.fr/geonetwork/srv/fre/catalog.search#/metadata/f76ed27f-325d-493b-8731-0995dcaa7805. Special attention was paid to offer carbon metrics required for the French Label Bas Carbone offset projects.
Published: 2022

45. Petits jeux de données et prédiction en Intelligence Artificielle, vers une meilleure cohabitation : Application à la gestion durable de l'enherbement des systèmes agricoles à La Réunion

Author: Fabre Ferber, Frédérick, Diatta, Jean, Soulié, Jean-Christophe, Gay, Dominique, Maillard, Odalric-Ambrym, Le Bourgeois, Thomas, Auzoux, Sandrine, Laboratoire d'Informatique et de Mathématiques (LIM), Université de La Réunion (UR), Recyclage et risque (UPR Recyclage et risque), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad), Département Performances des systèmes de production et de transformation tropicaux (Cirad-PERSYST), Scool (Scool), Inria Lille - Nord Europe, Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria)-Centre de Recherche en Informatique, Signal et Automatique de Lille - UMR 9189 (CRIStAL), Centrale Lille-Université de Lille-Centre National de la Recherche Scientifique (CNRS)-Centrale Lille-Université de Lille-Centre National de la Recherche Scientifique (CNRS), Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Département Systèmes Biologiques (Cirad-BIOS), and Agroécologie et Intensification Durables des cultures annuelles (UPR AIDA)
Subjects: [SDV.SA]Life Sciences [q-bio]/Agricultural sciences, Kernel, Adventice tropicale, Transformation d'espace, Prédiction de l'enherbement, Intelligence artificielle, La Réunion, [INFO.INFO-AI]Computer Science [cs]/Artificial Intelligence [cs.AI]
Abstract: International audience; Transformer les données pour obtenir une meilleure représentation et ainsi, mieux gérer la gestion de l'enherbement Kernels et transformation d'espace Perspectives Ces travaux de thèse permettront d'améliorer d'une part, la performance prédictive des algorithmes pour une meilleure gestion de l'enherbement des systèmes agricoles et d'autre part, pourront guider à la création de protocoles efficaces de collecte de données agronomiques pour améliorer leur qualité.
Published: 2022

46. Impacts of geodynamical processes on the socio-ecosystem of North Tanzania

Author: Tiberi Christel, Gautier-Raux Stéphanie, Parat Fleurice, Albaric Julie, Gaucherel Cédric, Hély Christelle, Rey Tony, Defossez Stéphanie, Gherardi Monique, Leone Frédéric, Le Hebel Florence, Msabi Michael, Mangasini Fredrick, Mulibo Gabriel, Massawe Ronald, Géosciences Montpellier, Institut national des sciences de l'Univers (INSU - CNRS)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA)-Université de Montpellier (UM), Laboratoire Chrono-environnement (UMR 6249) (LCE), Centre National de la Recherche Scientifique (CNRS)-Université de Franche-Comté (UFC), Université Bourgogne Franche-Comté [COMUE] (UBFC)-Université Bourgogne Franche-Comté [COMUE] (UBFC), Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Institut des Sciences de l'Evolution de Montpellier (UMR ISEM), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Institut de recherche pour le développement [IRD] : UR226-Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM), Université Paul-Valéry - Montpellier 3 (UPVM), Interactions, Corpus, Apprentissages, Représentations (ICAR), École normale supérieure de Lyon (ENS de Lyon)-Université Lumière - Lyon 2 (UL2)-INRP-Ecole Normale Supérieure Lettres et Sciences Humaines (ENS LSH)-Centre National de la Recherche Scientifique (CNRS), University of Dodoma [Tanzanie] (UDOM), University of Dar es Salaam (UDSM), and Geological Survey of Tanzania (GST)
Subjects: [SCCO]Cognitive science, [SDU]Sciences of the Universe [physics], [SDE]Environmental Sciences, Hazards and Risks, [SDU.STU]Sciences of the Universe [physics]/Earth Sciences, didactic, geodynamics, ecology, North Tanzania
Abstract: In North Tanzania, magmatic processes interact with tectonic to give rise to recurrent seismicity and volcanic eruptions, leading to spare and heterogeneous hazards. North Tan- zania is also experiencing a growing economy and an extremely rapid population expansion. The presence of protected areas, natural parks and an active volcano (Oldoynio Lengai) drives a lot of tourism and increases the stakes in the region. The purpose of this work is first to estimate the seismic and volcanic hazards in the area. It implies understanding the interaction between deep and surficial processes. For this purpose, we combine geophysical imaging (seismology, gravimetry) with petrophysical analysis of rocks and lavas. It helps us to reach different scales in space and time and to obtain constraints for crust and mantlestructure. Second, we intend to map the structural vulnerabilities to conduct a diagnosis of the geological risk. We assess a priori and human vulnerability by questioning the popu- lations’ volcanic and seismic risk perception. The people in North Tanzania are differently exposed to natural hazards. The proximity to volcanic edifices or seismic crises experience can strongly influence a population’s naive knowledge. We thus aim to understand the dy- namics between the na ̈ıve knowledge that people can get from their experience and culture and the scientific knowledge obtained from education. Finally, we will use formal modelling approaches to model the ecosystem dynamics in light of our results. With these models, we identify the components and processes favouring a resilient system behaviour or a more dangerous one.
Published: 2022

47. Tipping point interactions may also generate weakening cascades

Author: Gaucherel, Cédric, Hély, Christelle, Moron, Vincent, Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), Institut des Sciences de l'Evolution de Montpellier (UMR ISEM), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Institut de recherche pour le développement [IRD] : UR226-Centre National de la Recherche Scientifique (CNRS)-Université de Montpellier (UM), Centre européen de recherche et d'enseignement des géosciences de l'environnement (CEREGE), and Institut de Recherche pour le Développement (IRD)-Aix Marseille Université (AMU)-Collège de France (CdF (institution))-Institut national des sciences de l'Univers (INSU - CNRS)-Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)
Subjects: [SDU.STU.CL]Sciences of the Universe [physics]/Earth Sciences/Climatology, [SDE.MCG]Environmental Sciences/Global Changes, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, [SDE.ES]Environmental Sciences/Environmental and Society
Abstract: The paper written by D. I. A. McKay et al. represents an interesting milestone for understanding the Earth's climate, and has stimulated public interest in such global issues. However, as researchers engaged in climatology and biome responses, we have some concerns about its findings. In this response, we posit five technical and conceptual arguments that question the assumptions of this work. McKay et al.'s paper provides a detailed analysis of the possible tipping points (TPs, with their associated thresholds) that the Earth may experience.
Published: 2022

48. Host-plant adaptation as a driver of incipient speciation in the fall armyworm ( Spodoptera frugiperda )

Author: Estelle Fiteni, Karine Durand, Sylvie Gimenez, Robert L. Meagher, Fabrice Legeai, Gael J. Kergoat, Nicolas Nègre, Emmanuelle d’Alençon, Kiwoong Nam, Diversité, Génomes & Interactions Microorganismes - Insectes [Montpellier] (DGIMI), Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM), USDA-ARS : Agricultural Research Service, Institut de Génétique, Environnement et Protection des Plantes (IGEPP), Université de Rennes (UR)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Rennes Angers, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), Plateforme bioinformatique GenOuest [Rennes], Université de Rennes (UR)-Plateforme Génomique Santé Biogenouest®-Inria Rennes – Bretagne Atlantique, Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria)-GESTION DES DONNÉES ET DE LA CONNAISSANCE (IRISA-D7), Institut de Recherche en Informatique et Systèmes Aléatoires (IRISA), Université de Rennes (UR)-Institut National des Sciences Appliquées - Rennes (INSA Rennes), Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Université de Bretagne Sud (UBS)-École normale supérieure - Rennes (ENS Rennes)-Institut National de Recherche en Informatique et en Automatique (Inria)-CentraleSupélec-Centre National de la Recherche Scientifique (CNRS)-IMT Atlantique (IMT Atlantique), Institut Mines-Télécom [Paris] (IMT)-Institut Mines-Télécom [Paris] (IMT)-Université de Rennes (UR)-Institut National des Sciences Appliquées - Rennes (INSA Rennes), Institut Mines-Télécom [Paris] (IMT)-Institut Mines-Télécom [Paris] (IMT)-Institut de Recherche en Informatique et Systèmes Aléatoires (IRISA), Institut Mines-Télécom [Paris] (IMT)-Institut Mines-Télécom [Paris] (IMT)-Institut National des Sciences Appliquées - Rennes (INSA Rennes), Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Université de Bretagne Sud (UBS)-École normale supérieure - Rennes (ENS Rennes)-CentraleSupélec-Centre National de la Recherche Scientifique (CNRS)-IMT Atlantique (IMT Atlantique), Institut Mines-Télécom [Paris] (IMT)-Institut Mines-Télécom [Paris] (IMT), BioInformatics Platform for Agroecosystems Arthropods, Université de Rennes (UR), Scalable, Optimized and Parallel Algorithms for Genomics (GenScale), Inria Rennes – Bretagne Atlantique, Centre de Biologie pour la Gestion des Populations (UMR CBGP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Montpellier, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Université de Montpellier (UM), This work (ID 1702-018) was publicly funded through ANR (the French National Research Agency) under the 'Investissements d'avenir' programme with the reference ANR-10-LABX-0001 Labex Agro and coordinated by Agropolis Fondation under the frame of I-SITE MUSE (ANR-16-IDEX-0006). In addition, the study is supported by Agence Nationale De La Recherche (ORIGINS, ANR-20-CE92-0018) and by department of Sante des Plantes et Environnement at Institut national de recherche pour l'agriculture, l'alimentation et l'environnement (NewHost)., ANR-10-LABX-0001,AGRO,Agricultural Sciences for sustainable Development(2010), ANR-16-IDEX-0006,MUSE,MUSE(2016), and ANR-20-CE92-0018,ORIGINS,A l'origine de la divergence : les barrières conduisant à l'isolement reproducteur pré- et post-zygotique chez Spodoptera frugiperda(2020)
Subjects: Gene Flow, Reproductive Isolation, speciation with gene flow, Oryza, Spodoptera frugiperda, General Medicine, incipient speciation, Spodoptera, Zea mays, fall armyworm, Humans, Animals, host-plant adaptation, [SDV.BBM]Life Sciences [q-bio]/Biochemistry, Molecular Biology, [SDE.BE]Environmental Sciences/Biodiversity and Ecology
Abstract: Background Divergent selection on host-plants is one of the main evolutionary forces driving ecological speciation in phytophagous insects. The ecological speciation might be challenging in the presence of gene flow and assortative mating because the direction of divergence is not necessarily the same between ecological selection (through host-plant adaptation) and assortative mating. The fall armyworm (FAW), a major lepidopteran pest species, is composed of two sympatric strains, corn and rice strains, named after two of their preferred host-plants. These two strains have been hypothesized to undergo incipient speciation, based on (i) several lines of evidence encompassing both pre- and post-zygotic reproductive isolation, and (ii) the presence of a substantial level of genetic differentiation. Even though the status of these two strains has been established a long time ago, it is still yet to be found whether these two strains indeed exhibit a marked level of genetic differentiation from a large number of genomic loci. Here, we analyzed whole genome sequences from 56 FAW individuals either collected from pasture grasses (a part of the favored host range of the rice strain) or corn to assess the role of host-plant adaptation in incipient speciation. Results Principal component analysis of whole genome data shows that the pattern of divergence in the fall armyworm is predominantly explained by the genetic differentiation associated with host-plants. The level of genetic differentiation between corn and rice strains is particularly marked in the Z chromosome. We identified one autosomal locus and two Z chromosome loci targeted by selective sweeps specific to rice strain and corn strain, respectively. The autosomal locus has both increased DXY and FST while the Z chromosome loci had decreased DXY and increased FST. Conclusion These results show that the FAW population structure is dominated by the genetic differentiation between corn and rice strains. This differentiation involves divergent selection targeting at least three loci, which include a locus potentially causing reproductive isolation. Taken together, these results suggest the evolutionary scenario that host-plant speciation is a driver of incipient speciation in the fall armyworm.
Published: 2022

49. Kinematics and geomorphological changes of a destabilising rock glacier captured from close-range sensing techniques (Tsarmine rock glacier, Western Swiss Alps)

Author: Vivero, Sebastián, Hendrickx, Hanne, Frankl, Amaury, Delaloye, Reynald, Lambiel, Christophe, Université de Lausanne = University of Lausanne (UNIL), Université de Fribourg = University of Fribourg (UNIFR), Universiteit Gent = Ghent University (UGENT), Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), and Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM)
Subjects: Rock glacier, UAV, High-resolution topography, TIME-SERIES, Permafrost, INTERNAL STRUCTURE, LOW-COST, ALPINE GLACIER, high-resolution topography, rock glacier, FLOW DYNAMICS, Valais, STRUCTURE-FROM-MOTION, Earth and Environmental Sciences, SEDIMENT TRANSFER, [SDE]Environmental Sciences, PHOTOGRAMMETRY, General Earth and Planetary Sciences, CREEPING MOUNTAIN PERMAFROST, THICKNESS CHANGES, Switzerland, permafrost
Abstract: International audience; Accurately assessing landform evolution and quantifying rapid environmental changes are gaining importance in the context of monitoring techniques in alpine environments. In the European Alps, glaciers and rock glaciers are among the most characteristic cryospheric components bearing long and systematic monitoring periods. The acceleration in rock glacier velocities and the onset of destabilization processes, mainly since 1990, have raised several concerns due to the potential effects on the high alpine natural and anthropic environments. This study presents a combination of uncrewed aerial vehicle (UAV) and terrestrial laser scanning (TLS) surveys for monitoring the current changes on the quickly accelerating, destabilised Tsarmine rock glacier in the Arolla Valley, Western Swiss Alps, delivering a considerable volume of debris to a steep torrential gully. High-resolution digital elevation models (DEMs) and orthomosaics are derived from UAV image series combined with structure from motion (SfM) photogrammetry techniques. Multitemporal orthomosaics are employed for measuring spatially continuous rock glacier kinematics using image matching algorithms. Superficial displacements are evaluated with simultaneous in-situ differential global navigation satellite system (GNSS) measurements. Elevation and volume changes are computed from TLS and UAV-derived DEMs at similar periods. Between June 2017 and September 2019, both datasets showed a similar elevation change pattern and surface thinning rates of 0.15 ± 0.04 and 0.16 ± 0.03 m yr −1 , respectively. Downward of a rupture zone developing about 150 m above the front, the rock glacier doubled its overall velocity during the study period, from around 5 m yr −1 between October 2016 and June 2017 to more than 10 m yr −1 between June and September 2019. The kinematic information reveals striking differences in the velocity between the lower and upper rock glacier sections. The monitoring approach based on close-sensing techniques provides accurate surface velocity and volume change information, allowing an enhanced description of the current rock glacier dynamics and its surface expression.
Published: 2022

50. Spatially balanced sampling methods are always more precise than random ones for estimating the size of aggregated populations

Author: Jan Perret, Anne Charpentier, Roger Pradel, Guillaume Papuga, Aurélien Besnard, Centre d’Ecologie Fonctionnelle et Evolutive (CEFE), Université Paul-Valéry - Montpellier 3 (UPVM)-École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro Montpellier, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Université de Montpellier (UM), Botanique et Modélisation de l'Architecture des Plantes et des Végétations (UMR AMAP), and Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Université de Montpellier (UM)
Subjects: Spatial point process, Survey design, Plant population, Balanced acceptance sampling, Ecological Modeling, [SDV.BV.BOT]Life Sciences [q-bio]/Vegetal Biology/Botanics, [SDV.BID.SPT]Life Sciences [q-bio]/Biodiversity/Systematics, Phylogenetics and taxonomy, Clustered population, [SDV.EE.ECO]Life Sciences [q-bio]/Ecology, environment/Ecosystems, Autocorrelation, Sampling error, Population monitoring, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, Ecology, Evolution, Behavior and Systematics
Abstract: International audience; Population size is a crucial parameter for both ecological research and conservation planning. When individuals are aggregated, estimating the size of a population through sampling raises methodological challenges, as the high variance between sampling units leads to imprecise estimates. Choosing the right sample design depending on the population aggregation level could improve the precision of estimates; however, this is difficult because studies comparing sample designs for aggregated populations have been limited to a few populations and sampling designs, so their results cannot be generalised. To address this gap, we combined simulations of spatial point populations and field counts of three plant species to compare the relative precision of estimates between three sampling methods: simple random sampling (SRS), systematic sampling (SYS) and spatially balanced sampling (SBS). Comparisons were performed on density and aggregation gradients for a range of sample sizes. Our simulations showed that SYS and SBS were always more precise than SRS when individuals were aggregated, reducing sampling variance up to 80% and 60%. The highest precision for estimating population size was always obtained when the average distance between sampling units equalled the diameter of the clusters (i.e. the groups of individuals). The difference in precision was similar for the natural populations, with sampling variance lowered by up to 75% (SYS) and 60% (SBS) compared to SRS. These findings lead us to recommend using SYS or SBS rather than SRS to estimate population size when individuals are spatially aggregated, as these consistently provide more precise estimates. Assessing cluster diameters in the field enables a quick assessment of the potential gain in precision to expect, and thus the best choice of sampling method depending on the trade-off between precision and field constraints.
Published: 2022

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