cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15454/wlhbp6
title: Bioinformatic scripts used to analyze fungal metabarcoding data obtained from Vitis vinifera leaves

description: Bioinformatic scripts used to sort, filter and analyze fungal raw sequence data obtained by metabarcoding foliar, bark and ground cover samples collected in an untreated vineyard at INRA Villenave d'Ornon (France). Amplicon sequence variant (ASV) tables obtained for vine leaves and environmental sources (senescing leaves, bark and ground cover).
DOI: 10.15454/x3ocet
title: Model used to assess the 'Biological Operability' of sheep/cattle grazing to optimize ecosystem services bundles

description: Python script used to model ecosystem services provided by a pasture grazed by a mixed-species group of sheep and cattle
DOI: 10.15454/uoild4
title: ORPHEE - BIOPICC 2016 vegetation survey

description: Data set including : understorey richness, tree height mean and CV, tree proportions and composition, vegetation relevés in 2016
DOI: 10.15454/uyievl
title: RPG complété 2019 département 09

description: RPG complété 2019. Complète le RPG campagne 2019 pour le département 09. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2021.
DOI: 10.15454/v4fgjv
title: Original data -- Following the track: accuracy and reproducibility of predation assessment on artificial caterpillars

description: Original data analysed in the article entitled "Following the track: accuracy and reproducibility of predation assessment on artificial caterpillars" Variable description: * Response_ID: a single ID for each response to any of the online quizes * Respondant: was the respondant a professional scientist, a teacher, a student * Expertise: Self declared previous expertise in predation rate assessments wioth artificial larvae * Quizz: Quiz ID (1, 2, 3) * Language: quiz language (french, English, Spanish, german) * Picture: Picture ID (1 to 20, in each quiz) * Answer: respondant's identification of marks on caterpillar surface * ID: Picture ID, combining columns 'Quizz' and 'Picture' * Expert_answer: Correct predation mark idenitficatiàon as made by an expert, to be compared with respondant's identification ('Answer')
DOI: 10.15454/vbwywg
title: Software Architecture of the OLA Observatory Information System for Lake Environmental Research

description: OLA Information system (©SOERE OLA-IS, AnaEE-France, INRA Thonon-les-Bains, developed by Eco-Informatics ORE INRA Team) has been developed to meet data management needs of lake environmental research observatories in order to make data available for scientific communities. Software architecture of this IS is structured around (i) a shared central component dedicated to generic functions and (ii) modular components specific to lake thematics. The creation of the IS is done by inheriting the core component and using the appropriate modular components. SI is developed with the Java language (version 8). The components are Java projects that follow the structuring of a "multi-module" Maven project. The web interfaces are developed by using the framework JSF with Primefaces user interface component library. Spring and Hibernate frameworks complete the development tools. PostgreSQL is the relational database management system used. (2019-01-18). This information system makes it possible to store and make available physico-chemical data, biodiversity data (phytoplankton, zooplankton, fishes), data from multiparameter probes, chlorophyll, primary production, etc.
DOI: 10.15454/vf3r8i
title: RPG complété 2018 département 41

description: RPG complété 2018. Complète le RPG campagne 2018 pour le département 41. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2020.
DOI: 10.15454/vumc1p
title: Bash and R scripts to perform ABCtoolBox analysis and Random forest ABC

description: Commented bash and R scripts to perform ABCtoolBox analysis and Random forest ABC on an High Performance Computing infrastructure
DOI: 10.15454/vxsilb
title: data for "Can we identify wild-born salmon from parentage assignment data? A case study in the Garonne-Dordogne rivers salmon restoration programme in France."

description: This dataset provides genotypes at 9 microsatellites of 6229 Atlantic salmon from the Garonne-Dordogne restoration programme. It also provides mating plans corresponding to the 2014, 2015 and 2016 salmon runs. For these three years, genotypes of real migrating salmon and of 4000 simulated salmon each year are also provided, to test parentage assignment strategies.
DOI: 10.15454/w7a3hx
title: RPG complété 2018 département 32

description: RPG complété 2018. Complète le RPG campagne 2018 pour le département 32. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2020.
DOI: 10.15454/wxthjk
title: RPG complété 2019 département 41

description: RPG complété 2019. Complète le RPG campagne 2019 pour le département 41. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2021.
DOI: 10.15454/vmq3sg
title: RPG complété 2019 département 05

description: RPG complété 2019. Complète le RPG campagne 2019 pour le département 05. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2021.
DOI: 10.15454/vnnhlf
title: RPG complété 2019 département 90

description: RPG complété 2019. Complète le RPG campagne 2019 pour le département 90. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2021.
DOI: 10.15454/wzws4p
title: Supplemental Tables for Manzocchi et al., 2021. Feeding cows with hay, silage, or fresh herbage on pasture or indoors affects sensory properties and chemical composition of milk and cheese. Journal of Dairy Science. https://doi.org/10.3168/jds.2020-19738

description: This dataset contains Supplemental Tables S1 to S3 for Manzocchi et al., 2021. Feeding cows with hay, silage, or fresh herbage on pasture or indoors affects sensory properties and chemical composition of milk and cheese. Journal of Dairy Science, in press, https://doi.org/10.3168/jds.2020-19738.
DOI: 10.15454/xetxqu
title: Hypothalamic and caecal microbiota and metabolomic data

description: Hypothalamic metabolomic (UHPLC MS/MS) and caecal microbiota (16S rRNA) and metabolomic data (GC MS/MS) obtained from rats under chow or Western diet (WD). Data were collected from rats under chow diet and 2 hours, 1 day, 2 days and 4 days after WD switch (6 to 7 rats per group).
DOI: 10.15454/y0elha
title: RPG complété 2018 département 62

description: RPG complété 2018. Complète le RPG campagne 2018 pour le département 62. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2020
DOI: 10.15454/yoz5lv
title: Annotation data about Multi Criteria Assessment Methods used in Animal Physiology and Livestock Systems : the French National Institute for Agricultural Research (INRA-PHASE) 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 Physiology and Livestock Systems department. Those researchs aim to conceive and evaluate sustainable livestock systems able to meet economic and societal needs while preserving the environment. This is conducted via two research axes: - Deciphering biological mechanisms that regulate physiological functions - Conceiving and evaluating new livestock techniques and systems
DOI: 10.15454/wlbsut
title: RPG complété 2019 département 71

description: RPG complété 2019. Complète le RPG campagne 2019 pour le département 71. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2021.
DOI: 10.15454/wsmrin
title: Oak Genome Sequencing Website

description: The oak genome sequencing website, concerning the sequencing of the oak genome and identification of genes important for the adaptation of forest trees, is a permanent resource by INRAE, available at http://www.oakgenome.fr/. It provides access to various resources : oak genome by the numbers, data, links, publications, partners, funding and outreach. It was conducted by a French consortium led by Christophe Plomion at INRAE Bordeaux. The oak haploid genome assembly and corresponding annotation have been deposited in the European Nucleotide Archive under project accession code PRJEB19898.
DOI: 10.15454/yjfffj
title: Tree size data from a Populus trial of the FCBA network

description: Plus de 2600 essais forestiers ont été installés depuis 1964, par l’AFOCEL, puis FCBA. Les essais sont de nature variée, depuis la simple placette de suivi de production installée dans un peuplement « standard » jusqu’à l’expérimentation la plus complexe permettant une interprétation statistique rigoureuse des résultats. Aujourd’hui, environ 1000 essais sont encore suivis. Ils concernent essentiellement cinq genres principaux (Pinus, Pseudotsuga, Picea, Populus, Eucalyptus) auxquels s’ajoutent quelques espèces de la famille des taxodiacées (Sequoia sempervirens, Sequoiadendron giganteum), ainsi qu’une vingtaine d’autres espèces feuillues et résineuses. Les thèmes principaux des essais actuels sont l’amélioration génétique (&gt; 50 %), puis les techniques de reboisement et la sylviculture (environ 20 % chacun). Certains thèmes largement étudiés dans le passé, tels que la fertilisation ou le suivi de pépinière (types de plants et de conteneurs) sont aujourd’hui assez peu représentés. Le jeu de données contient les informations recueillies annuellement de 1986 à 2003 dans un dispositif traitant des impacts du travail du sol et de l'entretien sur la croissance du peuplier. (21012 - ECHIGEY) More than 2600 forest trials have been installed since 1964 by the French Institute of Technology for Forest-based and Furniture Sectors (FCBA). The trials are varied, ranging from a simple monitoring plot installed in a "standard" stand to the most complex experimentation allowing a rigorous statistical interpretation of the results. Today, about 1000 trials are still being monitored. They mainly concern five main Genus (Pinus, Pseudotsuga, Picea, Populus, Eucalyptus) to which are added a few species of the taxodiaceae family (Sequoia sempervirens, Sequoiadendron giganteum), as well as about twenty other broadleaved and coniferous species. The main areas of current trials are genetic improvement (&gt;50%), followed by reforestation techniques and silviculture (about 20% each). Some topics that were widely studied in the past, such as fertilisation or nursery monitoring (types of seedlings and containers), are now rather poorly represented. The dataset contains the information collected annually from 1986 to 2003 in an experimental trial dealing with the impacts of site preparation and undergrowth cleaning on poplar growth. (21012 - ECHIGEY)
DOI: 10.15454/ykmodn
title: RPG complété 2019 département 70

description: RPG complété 2019. Complète le RPG campagne 2019 pour le département 70. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2021.
DOI: 10.15454/yrga9f
title: RPG complété 2019 département 32

description: RPG complété 2019. Complète le RPG campagne 2019 pour le département 32. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2021.
DOI: 10.15454/vcz6bs
title: Conservatoire Européen d'Echantillons de Sol.

description: Le Conservatoire Européen d'Echantillons de Sol ou CEES a été créé sous l'égide du GIS Sol (Groupement d'Intérêt Scientifique sur les Sols) pour accueillir, préparer, gérer, stocker et distribuer les échantillons de sols issus de différents programmes nationaux et européens d'inventaire et de surveillance de la qualité des sols. Il constitue une banque de matériaux mise à disposition des chercheurs (sous conditions) pour divers programmes de recherche. Il renferme des échantillons représentatifs des principaux types de sols français. Il est géré par l'unité InfoSol INRAE Orléans.
DOI: 10.15454/vpugug
title: Confocal cleared L4 aphid head-stylets

description: Confocal cleared L4 aphid heads: Aphids were cleared/treated after "Smolla M, Ruchty M, Nagel M, Kleineidam CJ: Clearing pigmented insect cuticle to investigate small insects' organs in situ using confocal laser-scanning microscopy (CLSM). Arthropod structure & development 2014, 43(2):175-181.", and observed on a Zeiss confocal laser scanning microscope (488 nm argon laser source), L4 nymphal instars were placed in scanning chambers with methyl salicylate. Aphids were examined using the LSM 800 CLSM with a 10x dry objective (0.40 NA) and 40s and 100x oil immersion objectives (0.7 and 0.95 NA). Optical sections of whole heads were obtained at z-steps ranging from 1 to 5 µm resulting in an x-y plane at 1024x1024 pixel resolution. Three files are provided: an original .czi Zeiss format stack, and Imaris .ims file with contoured 3D object (Retort organs and neighbouring structures), and an Imaris .tif export.
DOI: 10.15454/vwtjys
title: Brassicaceae transposable elements copies and Arabidopsis thaliana annotations

description: The Brassicaceae TE copies from Arabidopsis thaliana Col-0 ecotype, Arabidopsis lyrata, Capsella rubella, Arabis alpina, Brassica rapa and Schrenkiella parvula, used for Duster annotation, and TAIR10 TE, Duster, and Brassicaceae annotations.
DOI: 10.15454/wajnga
title: Trait variation in invasive populations: a global analysis of brown trout morphology.

description: The present datasets describe morphological measurements performed on 32 brown trout populations distributed among five regions around the world.
DOI: 10.15454/wb2kn2
title: LAE technical data

description: This document describes the input parameters of the LAE antimicrobial compounds that will be used to enhance the conservation of cheese. This table is in connection with the deliverable 3.2. The objective of the deliverable 3.2 was to identify and characterize the active functionalities, namely antimicrobial compounds and oxygen scavengers, and the intelligent functionalities, namely the RFID based biosensor, to be included in packaging in order to improve and control the storage of targeted products packaged with the new PHBV packaging. To achieve the active functionalites objective (regarding antimicrobial compounds), the best anti-microbial molecules were selected depending on their Minimum Inhibitory Concentration (MIC), their Admissible Daily Intake (ADI) and odor threshold value (if any). The quantity to be added in the packaging material was calculated thanks to the modeling. Analysis of the literature and the study of the exposure assessment have permitted to select the LAE for cheese. LAE is a non-volatile molecule. It is intended to migrate into food when intimate contact between packaging and food is achieved. This migration will depend on the diffusivity value of LAE in the polymer matrix and the partition coefficient KPL between polymer and food.The LAE concentration in food should be compared to the MIC value and the admissible dose intake (ADI) to confirm the potential action of LAE as antimicrobial compounds for cheese. This present table is a summary of technical data on LAE used to dimension active based packaging for cheese containing LAE.
DOI: 10.15454/wb51ll
title: Annotation data about Multi Criteria Assessment Methods used in the agri-food research : the French National Institute for Agricultural Research (INRA) experience

description: This data article contains annotation data characterizing Multi Criteria Assessment Methods proposed in the scientific literature by INRA researchers.
DOI: 10.15454/weyyvz
title: airGRdatassim: Ensemble-Based Data Assimilation in GR Hydrological Models. R package version 0.1.4

description: Add-on to the 'airGR' package which provides the tools to assimilate observed discharges in daily GR hydrological model. The package consists in two functions allowing to perform the assimilation of observed discharges via Ensemble Kalman filter or Particle filter.
DOI: 10.15454/wpufud
title: How and when does outcrossing occur in the predominantly selfing species Medicago truncatula?

description: Microsatellite datasets of maternal progenies from a Medicago truncatula natural population located near Narbonne, in southern France (Aude) and analysed in te article "Original article: How and when does outcrossing occur in the predominantly selfing species Medicago truncatula?". Individuals were sampled from pods produced either early or late in the flowering season and were genotyped at 20 microsatellite loci.
DOI: 10.15454/ws5qph
title: PGD du projet “Devenir des microplastiques dans les sols – quels indicateurs des sources, teneurs et impacts pour la qualité et la santé des sols ?” (PLASTISOL)

description: Plan de Gestion des données du projet PLASTISOL (financement à l'AAP GRAINE 2019 de l'ADEME). Ce Plan décrit la gestion des différents types de données qui seront générés au cours du projet "Devenir des microplastiques dans les sols – quels indicateurs des sources, teneurs et impacts pour la qualité et la santé des sols ?"
DOI: 10.15454/wvmao0
title: RPG complété 2019 département 38

description: RPG complété 2019. Complète le RPG campagne 2019 pour le département 38. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2021.
DOI: 10.15454/x8g2li
title: Pollen species carried by wild bees in wooded and herbaceous semi-natural habitats

description: The aim was to assess the pollens carried by wild bees hunted in three types of semi-naturel habitats :permanent grasslands,forest edges and hedgerows. The bees were netted in each of these habitats,in 30 landscapes selected according to a gradient of % woodland. Pollen grains were collected on female bee’s body with a fine tweezer and a moistened brush and were deposited directly into a droplet of water placed on a microscope slide. Pollen grains from each individual bee were observed under a x400 optical microscope and identified to genera or species level based on the pollen reference collection of the INRAe du Magneraud.
DOI: 10.15454/xdmksa
title: RPG complété 2018 département 36

description: RPG complété 2018. Complète le RPG campagne 2018 pour le département 36. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2020.
DOI: 10.15454/xfn7z7
title: Data related to the publication : "Postprandial plasma amino acid and metabolite kinetics of adult and growing pigs fed a diet with free amino acids and small peptides with a balanced or unbalanced amino acid profile"

description: Data set (in excel) from an experiment entitled "Postprandial plasma amino acid and metabolite kinetics of adult and growing pigs fed a diet with free amino acids and small peptides with a balanced or unbalanced amino acid profile"; The data set contains the AA concentration data of the 20 proteinogenic AA for 16 different time points after feeding either a balanced or unbalanced diet to 8 pigs, 4 adult and 4 growing pigs
DOI: 10.15454/v3scrc
title: Enriched GO terms in the eight clusters of differentially expressed genes

description: Enriched gene ontology terms in each of the eight clusters of differentially-expressed M. incognita genes. For each cluster (A-H), enriched GO terms, as compared to the whole set of differentially expressed genes, were identified using a hypergeometric test as implemented in the GofuncR Bioconductor package (https://www.bioconductor.org/packages/release/bioc/html/GOfuncR.html). To eliminate redundancy between GO terms and only keep representative ones, the option '-refine' was used in GOfuncR. Because we made 8 comparisons (8 clusters) we considered as significant GO terms that returned a corrected p-value of 0.05/8 = 0.00625.
DOI: 10.15454/vxezez
title: Artisanal fisheries activities in Guinea: GPS tracking of fishing boats

description: Two GPS logger were successively embedded on artisanal boats during a one-year pilot activity of the DEMERSTEM EU project (http://pescao-demerstem.org). We aim to use GPS logger as additional information to regular data collection. Usually data collection for Small scale fisheries in West Africa is based on landing survey on a sampling of boats. Usually the strata used for the sampling scheme is at least year, month, landing port, gear, Year and sometimes additional information on boat characteristics (boat type, motorized or not, class of length). This information is useful to estimate total landings using the landings / effort by strata. However, it’s tricky to estimate where the landings came from and to have a precise information on effort (Number of fishing hours), GPS logger will help us in having: • Spatial view of fishing activity that could give information for a better spatial management of fisheries (avoiding fishermen to harvest stocks during particular period in particular area – by example in sensitive habitat during the juvenile growth period) • Effort, that is useful for stock assessment (producing Catch per unit of effort as an important metric for stock assessment model) The dataset is first composed of 271 600 positions, for 6 months (April 2019 to September 2019) collected from different fishermen. Additional file is provided with information on fishing activity during a subset of the trajectories. For this subset of the previous file, Mohamed Soumah added information on fishing activity best on expert knowledge. (start time of fishing operation and end time). This additional file will be used as observed fishing activity dataset in order to predict fishing operation on the global dataset using only the trajectory of the fishing boat. The dataset could be analysed using the GPSmonitoring R packages (https://github.com/polehalieutique/GPSMonitoring)
DOI: 10.15454/wq3ymp
title: RPG complété 2018 département 70

description: RPG complété 2018. Complète le RPG campagne 2018 pour le département 70. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2020.
DOI: 10.15454/xofchy
title: Changes of fungal and bacterial community composition of forest organic horizons with low and high phosphorus availability

description: This dataset describes the microbial community compostion of two organic horizons from temperate beech forest (Germany). A three-months laboratory incubation experiment with litter addition was set up to assess how P derived from beech litter changed the structure of total microbial community. Molecular fingerprint (Terminal Restriction Lenght Polymorphism - T-RFLP) analyses were conducted to explore the structure of the bacterial and the fungal community. More details can be found in the "information" sheet in the dataset.
DOI: 10.15454/xqonfe
title: Annotation data about Multi Criteria Assessment Methods used in Nutrition, Chemical Food Safety and Consumer Behaviour : the French National Institute for Agricultural Research (INRA-ALIMH) 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 Nutrition, Chemical Food Safety and Consumer Behaviour department.