Résumé
The data set was produced from observations from the infrastructure OLA (Observation and experimentation on LAkes) on the site Lake Geneva in the e...
Auteurs, date et publication :
Auteurs Frédéric Rimet , Viet Tran-Khac , Leslie Lainé
Date : 2021
Catégorie(s)
#INRAE #OLARésumé
A modelling approach for the thermal acclimation of plant photosynthesis and respiration is presented that accounts for changes in the maximum carbon (C) assimilation with changing growth temperature. It is motivated by one key observation, i.e. the optimum temperature for plant processes increases with increasing growth temperature, and two corollary expectations: (i) this determines a modification of the response curve of C assimilation, and (ii) plant C release (respiration) is also affected by changing growth temperature. Simple relations are proposed to model these phenomena, consistent with the Farquhar model of photosynthesis. The incorporation of temperature acclimation of plant photosynthesis and respiration into the Farquhar-based scheme of the Pasture Simulation model (PaSim; EMS: existing modelling solution, MMS: modified modelling solution) is proposed as a way to reduce the uncertainty in estimations of harvested or standing above ground biomass and C fluxes from grassland systems in Central France. Here we show that, across a flux tower grassland site spanning two alternative grazing regimes (Laqueuille, 45° 38′ N, 02° 44′ E, 1040m a.s.l.), acclimation parameterizations improve model ability to reproduce observed ecosystem respiration (especially with extensive grazing, where root mean square error [RMSE] lowered from 15.20 to 11.59gCm−2week−1). An assessment at two grassland systems (Saint-Genès-Champanelle and Theix, 45° 43′ N, 03° 01′ E, 880m a.s.l.) with alternative cutting regimes and climate conditions also showed some improvements in biomass estimates (e.g. with frequent cutting and experimental extreme summer event RMSE changed from 0.86 to 0.40tDMha−1). The consequences of acclimation for simulated grassland outputs depend on the conditions evaluated which requires further studies. However, our results suggest that grassland modelling omitting plant temperature acclimation is likely to overestimate C emissions, thus biasing projections of future C storage and estimates of policy-making indicators.
Auteurs, date et publication :
Auteurs R. Sándor , C. Picon-Cochard , R. Martin , F. Louault , K. Klumpp , D. Borras , G. Bellocchi
Publication : Field Crops Research
Date : 2018
Volume : 222
Pages : 238-255
Catégorie(s)
#ACBB #ACBB Theix #ANR-Citation #INRAEAuteurs, date et publication :
Auteurs Karan Kakouei , Benjamin M. Kraemer , Orlane Anneville , Laurence Carvalho , Heidrun Feuchtmayr , Jennifer L. Graham , Scott Higgins , Francesco Pomati , Lars G. Rudstam , Jason D. Stockwell , Stephen J. Thackeray , Michael J. Vanni , Rita Adrian
Publication : Global Change Biology
Date : 2025
Volume : 27
Issue : 24
Pages : 6409-6422
Catégorie(s)
#INRAE #OLAAuteurs, date et publication :
Auteurs Jean-Marc Teulé
Date : 1970
Catégorie(s)
#ECP #INRAERésumé
The objectives of this study were to describe and quantify Aleppo pine aerial primary growth processes and to assess their relationships with climate. Primary growth (branch length growth, branching rate, polycyclism, needle number and size, fruiting), i.e. crown development and reproduction, was reconstructed for the last 16 years in Mediterranean France. From 1998 to 2007, climate has been far hotter and drier than normal in South-eastern France. All variables related to crown development and fruiting, as well as radial growth, significantly declined after 2003 heat wave and during repeated droughts from 2004 to 2007. A partial recovery of most parameters occurred from 2008 to 2010 on vigorous branches while frail branches showed less improvement. The limited crown development during unfavourable years may significantly hold back tree potential photosynthetic biomass for several following years and contribute to a slower than expected recovery of tree growth or to delayed die-back.
Auteurs, date et publication :
Auteurs François Girard , Michel Vennetier , Frédéric Guibal , Christophe Corona , Samira Ouarmim , Asier Herrero
Publication : European Journal of Forest Research
Date : 2012
Volume : 131
Issue : 4
Pages : 919-931
Catégorie(s)
#FORET FontBlanche #INRAERésumé
The AnaEE (Analysis and Experimentation on Ecosystems, ESFRI) Research Infrastructure offers experimental facilities for studying ecosystems and biodiversity. A distributed Information System (IS) is developed, based on semantic interoperability of its components and the use of common vocabularies (AnaeeThes thesaurus and an OBOE-based
ontology). Discovery and access portals are fed by information (rdf triples) produced by the semantic annotation of AnaEE distributed resources: relational databases and modeling platforms. A first pipeline is developed for the automation of the annotation process and the production of the semantic data, annotation that may represent a huge conceptual and practical work. A second pipeline is devoted to the exploitation of these semantic data through the generation i) of standardized ISO and GeoDCAT metadata records and ii) of data files (NetCDF format) from selected perimeters (experimental sites, years, experimental factors, measured variables...). Genericity of the tools make them usable in different contexts of ontologies and databases.
Auteurs, date et publication :
Auteurs Christian Pichot , Damien Maurice , Philippe Clastre , Benjamin Jaillet , Rachid YAHIAOUI
Date : 2021
Catégorie(s)
#Ecoinfo #INRAERésumé
We present two datasets composed of high frequency sensors data, vertical in situ profiles and laboratory chemical analysis data, acquired during two different aquatic mesocosm experiments performed at the OLA (“Long-term observation and experimentation for lake ecosystems”) facility at the UMR CARRTEL in Thonon les Bains, on the French shore of Lake Geneva. The DOMLAC experiment lasted 3 weeks (4-21 October 2021) and aimed to simulate predicted climate scenarios (i.e. extreme events such as storms and floods) by reproducing changes in quality and composition of lake subsidies and runoff by increased inputs of terrestrial organic matter. The PARLAC experiment lasted 3 weeks (5-23 September 2022) and aimed to simulate turbid storms by light reduction. The experimental setup consisted of nine inland polyester laminated tanks (2.1 m length, 2.1 m width and 1.1 m depth) with a total volume of approximately 4000 L and filled with water directly supplied from the lake at 4m depth. Both experimental design included three treatments each replicated three times. The DOMLAC experiment involved a control treatment (no treatment applied) and two treatments simulating allochthonous inputs from two different dissolved organic matter (DOM) extract from peat moss Sphagnum sp. (Peat-Moss treatment) and Phragmites australis (Phragmite treatment). The PARLAC experiment involved a control treatment (no treatment applied) and two treatments simulating two different intensity of light reduction. In the Medium treatment transmitted light was reduced to 70% and in the High treatment transmitted light was reduced to 15%. The datasets are composed of: 1. In situ measures from automated data loggers of temperature, conductivity, dissolved oxygen and CO2 acquired every 5 minutes at 0.1, 0.5 and 1 m depth (DOMLAC) and 0.5m (PARLAC) for the entire period of the experiment. 2. In situ profiles (0-1 m) of temperature, conductivity, pH, dissolved oxygen (concentration and saturation) acquired twice a week during the experiment. 3. In situ measures of light spectral UV/VIS/IR irradiance (300-950 nm wavelength range) taken in the air and at 0, 0.5 and 1 m twice a week on the same day of the profiles at point 2. 4. Laboratory chemical analysis of integrated samples taken twice a week on the same day of the in situ profiles at point 2 and 3 of conductivity, pH, total alkalinity, NO3, total and particulate nitrogen (Ntot, Npart), PO4, total and particulate phosphorus (Ptot, Ppart), total and particulate organic carbon (TOC, POC), Ca, K, Mg, Na, Cl, SO4 and SiO2. Only for DOMLAC also analyses of NH4, NO2 and dissolved organic carbon (DOC). 5. Laboratory analysis of pigments (Chla, Chlc, carotenoids, phaeopigments) extracted from samples collected at point 4. 6. Only for DOMLAC, specific absorbance on the range 600-200nm of DOM (i.e. <0.7 µm) measured on samples collected at point 4. This dataset aims to contribute our understanding of how extreme climate events can alter lake subsidies and affect the regulation of ecosystem processes such as production, respiration, nutrient uptake and pigment composition. The data can be used for a wide range of applications as being included in meta-analysis aiming at generalising the effect of climate change on large lakes including simulating future scenarios in a broad range of geographical areas as we used different inputs of DOM leached from litters reproducing catchments characteristics typical of different latitudes, such as mostly dominated by large leaf forests and phragmites at middle latitude, and coniferous forests rich of peat mosses that spread along the water surface typical of Northern regions.
Auteurs, date et publication :
Auteurs Viet Tran-Khac , Philippe Quetin , Laurent Espinat , Laura Crépin , Charlotte Cousin , Pascal Perney , Jean-Christophe Hustache , Geneviève Chiapusio , Isabelle Domaizon , Serena Rasconi
Publication : Data in Brief
Date : 2025
Volume : 49
Pages : 109302
Catégorie(s)
#INRAE #OLAAuteurs, date et publication :
Auteurs Viet Tran-Khac , Pascal Perney , Laura Crépin , Philippe Quetin , Isabelle Domaizon , Stéphan Jacquet , Laurent Espinat , Clémentine Gallot , Serena Rasconi
Publication : Data in Brief
Date : 2025
Volume : 36
Pages : 107150
Catégorie(s)
#INRAE #OLARésumé
Repeated applications of organic waste products (OWP) are a source of trace elements (TE) inputs to agricultural topsoils. The present study aimed at (i) assessing the effects of repeated OWP inputs on the chemical properties of topsoils in two long-term field experiments (13 and 15 years; calcareous and non-calcareous soils), (ii) evaluating TE phytoavailability and their transfer to grain (winter wheat and maize) and (iii) identifying the underlying factors causing alterations of TE phytoavailability. In both field experiments, receiving compliant or slightly high doses of OWP in compliance with regulations, OWP and soil physicochemical properties and TE concentrations in soils and grains were determined. In situ phytoavailability of TE was assessed at two juvenile crop growth stages by analyzing TE concentrations in shoot plantlets. Depending on the OWP input amount, results showed that compared to the soil receiving no organic amendment, repeated OWP inputs significantly increased soil organic carbon content, pH, cation exchange capacity, total soil Cu, Mo and Zn concentration and the phytoavailability of Mo, while the phytoavailability of Cd, Mn, Ni and Tl was significantly reduced. No notable effect was observed for Cr, Cu, Hg, Pb and Zn phytoavailability. Statistical approaches suggested that due to the repeated OWP applications, increased soil organic carbon content and pH, were likely responsible for decreased TE phytoavailability (e.g., Cd).
Auteurs, date et publication :
Auteurs Aurélia Marcelline Michaud , Valérie Sappin-Didier , Philippe Cambier , Christophe Nguyen , Noémie Janot , Denis Montenach , Lana Filipovic , Valentin Deltreil , Sabine Houot
Publication : Agronomy
Date : 2021
Volume : 11
Issue : 4
Pages : 664
Catégorie(s)
#ANR-Citation #INRAE #PRO #PRO ColmarRésumé
Methods for biomonitoring of freshwater phytoplankton are evolving rapidly with eDNA-based methods, offering great complementarity with microscopy. Metabarcoding approaches have been more commonly used over the last years, with a continuous increase in the amount of data generated. Depending on the researchers and the way they assigned barcodes to species (bioinformatic pipelines and molecular reference databases), the taxonomic assignment obtained for HTS DNA reads might vary. This is also true for traditional taxonomic studies by microscopy with regular adjustments of the classification and taxonomy.
For those reasons (leading to non-homogeneous taxonomies), gap-analyses and comparisons between studies become even more challenging and the curation processes to find potential consensus names are time-consuming. Here, we present a web-based application (Phytool), developed with ShinyApp (Rstudio), that aims to make the harmonisation of taxonomy easier and in a more efficient way, using a complete and up-to-date taxonomy reference database for freshwater microalgae. Phytool allows users to homogenise and update freshwater phytoplankton taxonomical names from sequence files and data tables directly uploaded in the application. It also gathers barcodes from curated references in a user-friendly way in which it is possible to search for specific organisms. All the data provided are downloadable with the possibility to apply filters in order to select only the required taxa and fields (e.g. specific taxonomic ranks). The main goal is to make accessible to a broad range of users the connection between microscopy and molecular biology and taxonomy through different ready-to-use functions. This study estimates that only 25% of species of freshwater phytoplankton in Phytobs are associated with a barcode. We plead for an increased effort to enrich reference databases by coupling taxonomy and molecular methods. Phytool should make this crucial work more efficient.
The application is available at https://caninuzzo.shinyapps.io/phytool_v1/
Auteurs, date et publication :
Auteurs Alexis Canino , Agnès Bouchez , Christophe Laplace-Treyture , Isabelle Domaizon , Frédéric Rimet
Publication : Metabarcoding and Metagenomics
Date : 2021
Volume : 5
Pages : e74096