cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15454/u7jm55
title: CIRCASA DELIVERABLE D4.3

description: One of the central deliverables of the CIRCASA project is the Open Collaborative Platform (OCP) on global soil organic carbon. This free public platform supports CIRCASA communication WP4 and works as the project legacy by strengthening the links across regions and institutions worldwide. By creating and reinforcing an International Research Community (IRC) on agricultural soil, the OCP supports the upcoming International Research Consortium designed by CIRCASA project.
DOI: 10.15454/unvsgn
title: Data from: Optimising spatial distribution of mass-flowering patches at the landscape scale to increase crop pollination

description: Implanting new plots of mass-flowering resources in landscapes can have both positive and negative effects on pollinator visitation rates to crops. We investigated the effects of flowering plot characteristics on the best places to locate new co-flowering plots to optimise crop pollination. First, we parameterised and validated an existing pollination model with field data. Then, we ran two simulation experiments, both of which simulated the conversion of one or multiple plots by modifying their flowering and nesting resource attributes. We quantified changes in pollinator visitation rates to "target" sunflower fields according to different conversion scenarios. The data set is composed of (i) the validation of the spatially explicit InVEST pollination model using field data collected in the Vallées et Coteaux de Gascogne (France), and (ii) the results associated with the two simulation experiments using InVEST pollination model. For the validation of model parameters, we sampled wild bees in 30 sites with three coloured pan traps per sampling site. We compared the predicted visitation rates vs the observed total abundance of bees in the pan traps. The visitation rate predictions were calculated in different radii around the sampling sites (from 1 to 100 m in increments of 1 m). The first experiment simulated the conversion of the flowering and nesting attributes of 1800 plots according to four scenarios (wildflower plot, sunflower field, More flowers, More nests). Changes in visitation rates induced by plot conversion were assessed in 368 target sunflower fields and then analysed according to the distance separating the converted plots from the target sunflower fields. For statistical replication, we divided our study area into 15 circular sectors. The radius of the circular sectors was 5 km and the sectors were centered on the centroid of a target sunflower field. The second simulation experiment quantified changes in visitation rates caused by the conversion of multiple plots into sunflower fields which are isolated to greater or less extents (Isolation vs Aggregation scenario). The target sunflower fields used to assess changes in visitation rates were the 15 sunflower fields defining the centre of the 15 circular sectors and the converted sunflower fields.
DOI: 10.15454/vfgxbn
title: Données de surveillance de Huanglongbing (HLB)

description: Données de surveillance du HLB des départements d’outre-mer français suivants : Réunion, Martinique, Guadeloupe. Ces données sont issues de la surveillance officielle du HLB par les SALIMs de ces territoires. Elles consistent principalement en des données de prospections géoréférencées dans des parcelles d’agrumes (toutes les données Réunion et la majeure partie des deux autres territoires), ainsi que dans des pépinières et chez des particuliers (uniquement Guadeloupe et Martinique pour ces deux types de zones). A notre connaissance, seul Candidatus Liberibacter asiaticus est présent sur ces îles. Trois fichiers sont mis à disposition, le jeu de données issu de la surveillance de la bactérie (data_HLB), un tableau des attributs décrivant les variables retenues (attributs_data_HLB) ainsi que la grille spatiale de 250m x 250m (grid_quadrat_HLB). Périodes : Réunion (974) : 2015-mai 2023. Martinique (972) : 2013-2021. Guadeloupe (971) : 2013-2018.
DOI: 10.15454/wevzor
title: Performance of a non-invasive methodology for assessing oxygen diffusion in liquid and solid food products - Impact of viscosity on oxygen diffusivity in different mixtures of Miglyol 829/Gel T measured at 20°C.

description: value unavailable
DOI: 10.15454/utib8u
title: Chromosomal rearrangements but no change of genes and transposable elements repertoires in an invasive forest-pathogenic fungus

description: We present a new de-novo whole-genome assembly obtained from a high quality DNA extraction and long-reads sequencing Nanopore technology obtained from an isolate sampled in the native Japanese area of the species. The comparison with a recently published reference genome showed no significant variations in gene and transposable elements (TEs) repertoires. We also showed that C. parasitica genome is lowly compartmentalized, with a poor association between TEs and some specific genes, such as those potentially involved in host interactions (i.e. genes coding for small secreted proteins or for secondary metabolites). This genome comparison, however, detected several large chromosomal rearrangements that may have important consequences in gene regulations and sexual mating in this invasive species. This study opens the way for more comparisons of high quality assembled genomes, and question the role of structural variations on the invasive success of this fungal pathogen species.
DOI: 10.15454/uubxif
title: Atacama

description: Predictive metabolomics performed on 24 extremophile plant species in 19 different sites along an elevation transect in the Atacama Desert.
DOI: 10.15454/uwwlfe
title: RPG complété 2018 département 64

description: RPG complété 2018. Complète le RPG campagne 2018 pour le département 64. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2020
DOI: 10.15454/w0sskt
title: airGRteaching: Teaching Hydrological Modelling with the GR Rainfall-Runoff Models ('Shiny' Interface Included). R package version 0.3.5

description: Add-on package to the 'airGR' package that simplifies its use and is aimed at being used for teaching hydrology. The package provides 1) three functions that allow to complete very simply a hydrological modelling exercise 2) plotting functions to help students to explore observed data and to interpret the results of calibration and simulation of the GR ('Génie rural') models 3) a 'Shiny' graphical interface that allows for displaying the impact of model parameters on hydrographs and models internal variables.
DOI: 10.15454/wdg7od
title: Data for BMC Vet Research

description: Data used for the publication BVET-D-20-01007R2 Identification of blood immune and metabolic indicators explaining the variability of growth of pigs under contrasted sanitary conditions Nathalie Le Floc'h, Ph D; Florence Gondret; Rémi Resmond
DOI: 10.15454/srbxq9
title: OasYs_AF

description: Ici sont rassemblées les descriptions des dispositifs agroforestiers de l’expérimentation système OasYs, mise en œuvre à l’Unité Expérimentale Fourrages, Ruminants et Environnement d’INRAE à Lusignan (UE FERLUS). Here are gathered the descriptions of agroforestry experimental plots implemented in the system experiment “OasYs” at the Forage, Ruminants and Environment Experimental Unit of INRAE in Lusignan (UE FERLUS).
DOI: 10.15454/u2bwfj
title: PHENOTIC Platform

description: The PHENOTIC platform gathers services for plant production and high-throughput phenotyping of plant material. The PHENOTIC platform develops approaches for phenotyping plants at two complementary scales: seeds and aerial parts of plants. Therefore, the purpose of the PHENOTIC platform is the phenotyping of all phases of the plant cycle, from seed germination to the flowering plant. To this end, the PHENOTIC platform gathers tools for image acquisition and analysis. • Seed scale: Tools aiming at Seed-Phenotyping are mainly based at SNES-GEVES. Seeds and plantlets are phenotyped to characterize Seed quality. • Plant scale: Tools aiming at the phenotyping of the aerial parts of plants are mainly based inside the Research Institute for Horticulture and Seeds on the site of "Campus du Végétal" in Angers, FRANCE. These tools are dedicated to the phenotyping of plant-microbe interactions or to the phenotyping of the quality of horticultural products. Tools are positionned in a complex featuring S0, S2 and S3 biosafety levels greenhouses and climate chambers. Therefore such tools enable phenotyping plant architecture or plant microbe interactions involving genetically modified organisms and quarantine pests. that enable phenotyping approaches. Phenotyping results obtained on the PHENOTIC platform may be used for: • The characterization of plant species and their genetic diversity, breedin applications. • Search for the genetic determinism of complex plant traits (QTLs). • Optimisation and Settings for modelling. • Evaluation of plant resistance to pathogens. • Evaluation of virulence of pathogens. • Determination of "metabolic fingerprints" of microbial pathogenic strains (in collaboration with CIRM-CFBP - doi: 10.15454/1.5103266699001077E12 ). • Evaluation of seed vigour. • Characterization of the 3D architecture of horticultural plants. The PHENOTIC platform leans on the research group ImHorPhen (Imaging for Horticultural Phenotyping) for R&D of novel phenotyping approaches.
DOI: 10.15454/ubfc6d
title: Monolith Earthworms

description: Earthworm density and biomass at six altitudinal levels along an elevation gradient at the Massif de Belledonne, France
DOI: 10.15454/ugfnke
title: Plot Vegetation 20x20m

description: Description of vegetation along an elevational gradient at Massif de Belledonne, France
DOI: 10.15454/unjtbj
title: Glopack Interview results market opportunities

description: Glopack Interview results market opportunities
DOI: 10.15454/vynllb
title: Focus groups recruitment

description: This dataset consists in the recruitment table of the participants involved in 8 consumer focus groups (qualitative consumer study) that have been conducted in France in June 2021 to get information on fermented (whey-based) drinks and new distribution modes. The data collected during the focus groups have been used to provide information in the deliverable D4.1.
DOI: 10.15454/zsvf1a
title: Assessment of CO2 solubility coefficient in semi-hard cheese related to ripening conditions - CO2 solubility in semi-hard cheese in relation to salt content

description: value unavailable
DOI: 10.15454/tbgrib
title: Arthemis database

description: The database hosts a dense diversity of arthropod species that are pests of different cultures throughout the world, as well as their natural enemies plus some species of conservation concern (Coleoptera Carabidae, Tenebrionidae ; Lepidoptera Papilionidae ; Neuroptera). Our main target groups belong to Coleoptera (Cerambycidae, Chrysomelidae Bruchinae, etc.) ; Diptera (Tephritidae) ; Hemiptera (Aleyrodidae, Aphididae (see below), Coccoidea, Heteroptera and Psylloidea) ; Hymenoptera (Chalcidoidea) and Lepidoptera [Crambidae (Ostrinia), Noctuidae (Spodoptera), Tortricidae] as well as to some mite families (Phytoseiidae, Tetranychidae). This database contains : - Information on insects and mites collected worldwild for scientific research purposes; some specimens can be provided on request. - DNA sequences (barcodes) of arthropod species sequenced in INRAE, CIRAD and SupAgro laboratories. We chose to sequence the mitochondrial Cytochrome c oxydase I standard barcode fragment (COI) as well as the nuclear internal transcribed spacer 2 (ITS2) to provide a reliable identification tool for all developmental stages of our target species. For some species, sequences from other genes studied for phylogenetic purposes are also available (Cyt b, Elongation Factor 1-α, 28s D2-D3 and D4-D5, 18s, Mago Nashi etc.). Arthemis also hosts information about the distribution of the sequenced species, their biology and ecology as well as taxonomic information (synonyms, common names, etc.) and pictures. By clicking the identification tools button in the navigation bar, you can compare your query sequences to our library of genetic sequences and get an identification (see database guidelines for more information).
DOI: 10.15454/u4s6of
title: SYS-Metha : Outil de prédiction des flux d'azote et de carbone sur les filières de méthanisation et des propriétés des digestats.

description: L'outil Sys-Metha permet de prédire : (1) les flux de carbone et d’azote sur les filières de méthanisation et (2) les caractéristiques du ou des digestats produits. L’outil a été développé pour les filières de méthanisation en voie liquide et considère les étapes de méthanisation, séparation de phase et stockage. L'outil est composé de quatre modules comprenant : un module de base de données, un module d'entrée de modèle, un module de transformation et un module de sortie. Le module de base de données est utilisé pour fournir les propriétés du substrat afin de calculer les caractéristiques de la ration d'alimentation du digesteur. Le module d'entrée du modèle permet de définir les conditions de digestion et de post-traitement telles que le débit d'entrée des substrats, le temps de séjour des matières, les conditions de séparation (presse à vis versus centrifugeuse) et les conditions de stockage du module de transformation (couvert/non couvert). Le module de transformation est basé sur le calcul du bilan massique et comprend trois modèles: un modèle de digestion anaérobie, un modèle de séparation de phase du digestat et un modèle de stockage du digestat. À partir de ce module, cinq flux sont prédits: flux de production de biogaz, flux de digestat brut, flux de digestat brut stocké, flux de digestat séparé (phases liquide et solide) et flux de digestats séparés stockés. Ces flux sont calculés en matière brut et sur les différents éléments (C, N notamment). A partir de ces flux, les caractéristiques du digestat sont calculées en fonction des conditions choisies dans le module d'entrée du modèle. En plus de ces sorties, les flux d'émissions sont calculés selon les conditions définies dans le module d'entrée du modèle. Le module de sortie synthétise les données prédites à l’échelle de la filière. L'outil a été implémenté sur Microsoft Excel 2007 ©. Il a été développé dans le cadre des projets MéthaPolSol (APR Ademe REACCTIF) et Proterr (ADEME, APR GRAINE).
DOI: 10.15454/uyxoeb
title: Discharge, CFCs and Forcing data for Guillec catchment

description: This dataset contains monthly discharge time series and CFCs atmospheric concentration data (groundwater age tracers) on the Guillec catchment (Brittany, France). It also contains the forcing data (geomorphological and meteorological data) necessary to run the hs1D model (https://github.com/jmarcais/hs1D_beta) on the Guillec catchment.
DOI: 10.15454/u1vh0z
title: Grapevine-downy-mildew-genome.com: a web portal with genomic data and analysis tools for the grapevine downy mildew pathogen (Plasmopara viticola)

description: http://grapevine-downy-mildew-genome.com/ is a web portal that provides public access to the reference genome of grapvine downy mildew (Plasmopara viticola, INRAE-PV221 strain). The reference genome is accessible through a dedicated genome browser. Related research are also available for download. The web portal hosts all the genomic data produced by the team of François Delmotte at INRAE Bordeaux / ISVV / University of Bordeaux, France. It is developed and maintained by Carole Couture (carole.couture[at]inrae.fr).
DOI: 10.15454/ubpoqg
title: Consumer perception data about food packaging functionalities for fresh strawberries - Consumers’ answers to poll for Plastic with plastic film
DOI: 10.15454/uv01p1
title: BDD-HydroClim fact sheets: graphical visualizations of observed hydroclimatic data at the catchment scale in France

description: A fact sheet is provided for each catchment, in which static plots summarize hydro-climatic, topographical, hydrogeological, and land cover data.
DOI: 10.15454/vpc7m8
title: RPG complété 2019 département 81

description: RPG complété 2019. Complète le RPG campagne 2019 pour le département 81. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2021.
DOI: 10.15454/vsqkhb
title: OntoBiotope-BioNLP-OST

description: This version OntoBiotope-BioNLP-OST is a subset of the OntoBiotope ontology. created for the Bacteria Biotope task of BioNLP-OST 2019 competition. OntoBiotope is an ontology of microorganism habitats. Its modeling principle and its lexicon reflect the biotope and the phenotype classification used by biologists to describe microorganism isolation sites (e.g. GenBank, GOLD, ATCC). OntoBiotope is developed and maintained by the Meta-omics of Microbial Ecosystems (MEM) network in which 30 microbiologists from INRA (French National Institute for Agricultural Research) from all fields of applied microbiology participate. The relevance of OntoBiotope terms is evaluated through the PubMedBiotope semantic search engine. It identifies and categorizes microbial biotopes in all PubMed abstracts by applying the ToMap method (Text to Ontology Mapping) to the OntoBiotope ontology. It also indexes 3,35 millions relations between taxa and their habitats.
DOI: 10.15454/womhp5
title: RPG complété 2019 département 57

description: RPG complété 2019. Complète le RPG campagne 2019 pour le département 57. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2021.
DOI: 10.15454/tw5wax
title: Annotation data about Multi Criteria Assessment Methods used in Science for Action and Development: the French National Institute for Agricultural Research (INRA-SAD) experience

description: This data article contains annotation data characterizing Multi Criteria Assessment Methods proposed in the scientific literature by INRA researchers belonging to the Science for Action and Development department. Its interdisciplinary approach combines agricultural, ecological and human and social sciences.
DOI: 10.15454/uc6cyv
title: RPG complété 2019 département 45

description: RPG complété 2019. Complète le RPG campagne 2019 pour le département 45. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2021.
DOI: 10.15454/vrw8yv
title: NumEtude

description: Fichier coordonnées enquête initiale
DOI: 10.15454/udqlge
title: Replication Data for "Large-scale multivariate dataset on the characterization of microbiota diversity, microbial growth dynamics, metabolic spoilage volatilome and sensorial profiles of two industrially produced meat products subjected to changes in lactate concentration and packaging atmosphere"

description: Data provide detailed information on the diversity of bacterial communities present on 576 samples of raw pork or poultry sausages produced industrially in 2017. Bacterial growth dynamics and diversity were monitored throughout the refrigerated storage period to estimate the impact of packaging atmosphere and the use of potassium lactate as chemical preservative. The data include several types of analysis aiming at providing a comprehensive microbial ecology of spoilage during storage and how the process parameters do influence this phenomenon. The analysis includes: the gas content in packaging, pH, chromametric measurements, plate counts (total mesophilic aerobic flora and lactic acid bacteria), sensorial properties of the products, meta-metabolomic quantification of volatile organic compounds and bacterial community metagenetic analysis. Bacterial diversity was monitored using two types of amplicon sequencing (16S rRNA and GyrB encoding genes) at different time points for the different conditions (576 samples for gyrB and 436 samples for 16S rDNA). Sequencing data were generated by using Illumina MiSeq. The sequencing data have been deposited in the bioproject PRJNA522361
DOI: 10.15454/ui00iy
title: RPG complété 2019 département 95

description: RPG complété 2019. Complète le RPG campagne 2019 pour le département 95. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2021.
DOI: 10.15454/umxqab
title: Atlas cartographique des bassins versants étudiés dans le cadre de l'Action 3: Caractériser la production sédimentaire

description: Ce document présente un atlas cartographique des bassins versants étudiés dans le cadre de l'Action 3: Caractériser la production sédimentaire (bassins versants équipés de plages de dépôts, fournissant des données de production sédimentaire et bassins versants de la Grenoble - Alpes Métropole servant de bassins versants tests de la méthode). Les cartes présentent pour chaque bassin: la localisation générale du bassin versant, les délimitations du bassin versant et des zones en érosion, la localisation des plages de dépôts, les sorties du logiciel SedInConnect (indice de connectivité sédimentaire) et les polylignes le long desquelles les profils en long du lit du cours d'eau et du cône de déjection ont été extraits.
DOI: 10.15454/utacz6
title: Annotation data about Multi Criteria Assessment Methods used in Animal Health: the French National Institute for Agricultural Research (INRA-SA) experience

description: This data article contains annotation data characterizing Multi Criteria Assessment Methods proposed in the scientific literature by INRA researchers belonging to the Animal Health department. Its research is dedicated to animal health and veterinary public health.
DOI: 10.15454/uuzigd
title: Supporting data for "Milk metabolome reveals variations on enteric methane emissions from dairy cows fed a specific inhibitor of the methanogenesis pathway"

description: Supplementary information containing figures, tables and tabulated data for "Milk metabolome reveals variations on enteric methane emissions from dairy cows fed a specific inhibitor of the methanogenesis pathway"
DOI: 10.15454/vktwkr
title: Bioinformatic scripts allowing the comparison of fungal metabarcoding pipelines

description: This dataset contains scripts and code that can be used to compare metabarcoding pipelines using a fungal mock community. These bioinformatics scripts were applied to the sequences available at https://doi.org/10.15454/8CVWRR (Pauvert et al. Bioinformatics matters: the accuracy of plant and soil community data is highly dependent on the metabarcoding pipeline. Submitted). They can be used to compare the performance of 360 software and parameter combinations. They are based on several softwares, including USEARCH (Edgar 2010), VSEARCH (Rognes et al. 2016) and DADA2 (Callahan et al. 2016). The code corresponds mainly to bash scripts and R files. README files are provided for clarity.
DOI: 10.15454/vn9f6h
title: Spatial predictions of total and extractable trace elements topsoil content in France

description: This dataset provides statistical predictions of total content of 8 trace elements in topsoil. The predictions are based on the data collected within the French soil monitoring network. Robust geostatistical techniques are applied to produce these predictions on a regular (about 2-km) grid.
DOI: 10.15454/wfffd8
title: Different patterns in leaf-associated viromes and mycobiomes of wild plant populations between cultivated and natural ecosystems

description: Supplementary methods and tables of Annexe 2: Different patterns in leaf-associated viromes and mycobiomes of wild plant populations between cultivated and natural ecosystems