cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.57745/rxjxhw
title: Additional figures for analysis report

description: Additional figures for analysis report of article: Metagenomics reveals contrasted responses of microbial communities to wheat straw amendment in cropland and grassland soils. ABSTRACT Soil microbial communities respond quickly to natural and/or anthropic-induced changes in environmental conditions, with potential impacts in terms of soil functioning. However, most studies are limited to specific microbial groups, mainly bacteria and fungi, thus the in situ dynamics of the whole microbial community remains to be documented. Here, we investigated the response of the soil microbial community (archaea, bacteria, fungi, protists and viruses) to wheat straw input in a 4-month in-situ field study. We employed global metagenomics to characterise the whole soil microbial diversity, and compared the results with those previously obtained using high throughput amplicon sequencing on the same soil samples. Taxonomic patterns at the community, phyla and genus levels, were concordant between the two methodologies but global metagenomics was more sensitive and allowed studying all the microbial groups simultaneously, showing the considerable potential of this approach for the fine analysis of microbial population dynamics in situ. Microorganisms from each taxonomic group were affected directly or indirectly by the amendment. Land-use histories impacted the soil communities and their responses to amendment. Lastly, both inter and intra-domain trophic interactions could be inferred from our dataset. In particular, we observed the multiplication of viral sequences in the early phase of straw decomposition, in parallel to that of copiotrophic bacteria, suggesting a “kill-the-winner” dynamic that, to our knowledge, had not been observed before in soils. Our study highlights that top-down regulation by microbial predators or viruses might play a key role in soil microbiota dynamics and structure.
DOI: 10.57745/scoy6d
title: Exclusion of intra-atrial thrombus, diagnosis using D-dimer assay before catheter ablation of atrial fibrillation

description: The purpose of the data collection was to answer to the hypothesis that the association of D-dimer blood level and several clinical items in a new risk score could predict the absence of atrial thrombus before catheter ablation. Demographics, clinical, biological, treatment, and score data were collected. Categorical data were used for gender, clinical history, clinical condition, therapy, and diagnostic of intra-atrial thrombus. Continuous data were used for age, left ventricular ejection fraction, drug dosage, d-Dimer level, and CHADS2 score. The primary outcome was the number of patients with atrial thrombus diagnosed by transesophageal ultrasound up to 48 hours before ablation. The secondary outcomes were 1) the CHADS2 Score determined 48 hours before ablation and 2) risk Factors of atrial thrombus (variables related to the presence of atrial thrombus 48 hours before ablation). Significant risk factors were used to determine the Atrial Thrombus Exclusion (ATE) Score. The ATE score include hypertension (= 1 point), cardiac insufficiency (= 1 point), history of stoke (= 1 point) and d-dimer level &gt;270ng/mL (= 1 point). The ATE score of zero was strongly associated with the absence of atrial thrombus.
DOI: 10.57745/pcqfc2
title: Bacteria Biotope 2019

description: Bacteria Biotope 2019 is a set of PubMed abstracts and full-text excerpts manually annotated for training and evaluating Information Extraction systems. The documents were selected on the topic of microbial biodiversity. The annotations denote microbe taxa their living habitats and phenotypes. Bacteria Biotope 2019 was proposed as a task in the BioNLP Open Shared Tasks 2019 and meets the BioNLP-OST standards of quality, originality and data formats. The tasks include Named Entity Recognition, Named Entity Normalization, Relation Extraction, and Knowledge Graph Acquisition.
DOI: 10.57745/pnwews
title: Weevil hyperspectral images database

description: Images of frozen dead weevils at different developmental stages and feeding conditions were captured with a hyperspectral camera to assess spectral differences between their cuticle. The camera used was a Specim FX10 which captures hyperspectral images from 400 to 1000 nm with a configuration of blue, green, and red wavelengths at 435 nm, 546 nm, and 699 nm respectively (corresponding in the script via the wave_lengths spreadsheet to the values 29, 113 and 227 respectively). The images are organized in several files detailed in the database sheet.pdf.
DOI: 10.57745/pqepu4
title: RPG complété 2018 département 28

description: RPG complété 2018. Complète le RPG campagne 2018 pour le département 28. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2020.
DOI: 10.57745/qq9qya
title: Données pour la Caractérisation dynamique du procédé Wire Arc Additive Manufacturing

description: Les données présentées ici font partie de l'article : Caractérisation dynamique du procédé Wire Arc Additive Manufacturing : vers la mise en place d’une boucle fermée Les données ici sont les données brutes obtenues durant la campagne expérimentale du projet. L'architecture est la suivante : - nom de l'expérience -numéro de l'expérience (chaque expérience est répétée 3 fois) - dossier des images - ... - fichier log (csv) contenant le nom de l'image et le temps à laquelle l'image à été prise(Time); la position dans le repère machine lorsqu'elle a été prise (X, Y, Z, B, C) - le scan du cordon dans le repère machine (stl) - fichier log (csv) du poste de soudure référençant la tension, l'intensité, la puissance et la vitesse de dévidage en fonction du début de la soudure et le numéro de couche.
DOI: 10.57745/rdtjsf
title: Replication data for "A mechanistic-statistical approach to infer dispersal and demography from invasion dynamics, applied to a plant pathogen"

description: Codes and data relating to the article "A mechanistic-statistical approach to infer dispersal and demography from invasion dynamics, applied to a plant pathogen".
DOI: 10.57745/sjncx3
title: Fostering joint action: bridging stakeholder engagement and media outreach

description: Fostering joint action: bridging stakeholder engagement and media outreach
DOI: 10.57745/st4v5w
title: In-field cover crop strips support carabid communities and shape the ecological trait repartition in maize fields

description: We investigated the effects of undestroyed strips of winter cover crops in maize fields on carabid community composition, and on the distribution of three ecological traits: diet, wing status and body size. This dataset contains 2 csv files: 1) carabid species abundance in samples collected in 12 fields, in the undestroyed strips as well as the surrounding cropped areas and margins; 2) carabid species traits. The dataset is described in more details in the attached readme file and further precisions are given in the related publication.
DOI: 10.57745/tqll0o
title: Indices d'abondances produits pour l'évaluation du stock de Thiof (Epinephelus Aeneus) lors du projet Européen DEMERSTEM

description: Ce jeu de données content l'ensemble des 4 séries d'indices d'abondances pour chaque pays partenaires du cas d'étude Epinephelus Aeneus (Sénégal et Mauritanie). Pour chacun des 2 pays il y a un indice d'abondance "brut" pêches scientifique et pêche artisanale. Il y a aussi un indice combiné optimiste par pays (Indice brute scientifique et indice pêche artisanale avec une dérive des puissances de pêche de 1% par an.Enfin il y a un indice combiné pessimiste avec une dérive des puissance de pêche sur l'indice commerciale de 7% par ans.
DOI: 10.57745/q2cpkz
title: Liste d'espèces - Climat actuel

description: Liste d'espèces végétales adaptées aux périodes prolongées de chaleur et de sécheresse, avec un accent particulier sur les espèces pérennes et indigènes (adaptées pour le climat actuel)
DOI: 10.57745/qfnfpn
title: Hydrological reconstruction (1960-2021) of the Velicka DRN (Czechia)

description: Hydrological model outputs at daily time step for the reconstruction period (1960-2021) in the Velicka DRN (Czechia). Simulated discharge, baseflow an state of flow (flowing/dry) is spatially distributed at the reach scale. Other hydroclimatic variables (temperature, precipitation, rainfall, snowfall, potential evapotranspiration, actual evapotranspiration, vegetation interception, snow water equivalent, saturation of the soil layer, saturation of the grounwater layer) are spatially aggregated at the catchment scale.
DOI: 10.57745/r7jeb1
title: Questionnaire et données de l'enquête sur l'estimation du niveau de satisfaction des gestionnaires forestiers français, concernant l'obtention des régénérations naturelles.

description: Questionnaire et données de l'enquête réalisée auprès des gestionnaires des forêts publiques et privées, en France métropolitaine. Cette enquête avait pour objectif d’identifier les grands contextes dans lesquels des difficultés pour réussir les régénérations naturelles sont rencontrées. Cette enquête a estimé le niveau de satisfaction des gestionnaires par rapport aux régénérations naturelles qu’ils ont menées, dans différents contextes forestiers (définis par le type de peuplement, la composition spécifique, le mode de régénération, et la région forestière). L’enquête ne permet pas de caractériser l’état des régénérations dans les différents contextes, mais permet d’estimer dans quelle mesure, à l’issue de la phase de régénération, les gestionnaires forestiers estiment que la régénération obtenue leur permettra d’atteindre leurs objectifs de gestion. Cette enquête constitue une première évaluation en France du succès des régénérations à travers différents contextes sylvicoles à l’échelle nationale. Les données ont été récoltées à l'aide d'un questionnaire en ligne d'octobre à décembre 2021.
DOI: 10.57745/rgn4av
title: Planted Forests , General Figures - France

description: Key figures about planted forest in France
DOI: 10.57745/s19p9x
title: Plan de gestion de structure du Cati SICPA v1

description: Version 1 du PGD du Cati SICPA
DOI: 10.57745/slrwr7
title: Genetic variants from 567 French cattle samples

description: The vcf file contains SNPs, small insertions and deletions (InDels) detected with Illumina paired-end sequencing data (15X mean coverage) for 567 bulls from 14 French cattle breeds. Sequences were aligned on the ARS-UCD1.2 reference genome assembly sequence using bwa mem and small genomic variations were walled with the GATK software.
DOI: 10.57745/pvqsev
title: Anonymized Aircraft trajectories

description: two hours of aircarft trajectoires
DOI: 10.57745/qidyj5
title: Données de réplication pour : Mathematical model of the behavior of mesenchymal stem cells in skeletal muscle and adipose tissue of growing animals

description: In vitro data of skeletal muscle and adipose tissue stem cells in culture for a mathematical model
DOI: 10.57745/rmemsz
title: Support d'entretien : Fonctions des Systèmes d'Innovation Responsables

description: Document support des entretiens réalisés auprès de l'association FILEG dans le cadre de l'étude sur sa contribution à la dynamique d'innovation régionale dans la filière des légumineuses, suivant l'approche des Systèmes d'Innovation Responsables.
DOI: 10.57745/s4crj0
title: Données isotopiques (13C et 14C) du CO2, chimie de l'eau et autres données diverses acquises sur les sables de Fontainebleau (Saint Rémy les chevreuse) et les sables astiens (Corneilhan) en France

description: Ce fichier contient des données acquises sur 2 sites d'étude, les sables de Fontainebleau (Saint Rémy les Chevreuse) et les sables astiens (Corneilhan) en France: *13C et 14C du CO2 de la zone non saturée *13C et 14C de la matière organique *Chimie de l'eau souterraine *13C du CO2 produit par l'activité biologique dans les sols (données acquises en laboratoire à partir d'échantillons de sol) *Données issues d'expérimentation pour déterminer le coefficient de diffusion dans différents types de sol *Potentiel hydrique (expérimentation en laboratoire et mesure in situ)
DOI: 10.57745/s8ldh4
title: Stable and efficient n = 2 Ruddlesden-Popper La/Pr nickelates as oxygen electrodes for SOCs applications

description: Dataset production context : The La for Pr substitution in the Ruddlesden-Popper (RP) n = 2 La3Ni2O7±δ nickelates was investigated for the first time in the whole possible substitution range for their use as oxygen electrodes in Solid Oxide Fuel Cells (SOFCs) and Electrolyzers (SOEC) devices.
DOI: 10.57745/slbmpo
title: RPG complété 2021 Région Champagne-Ardenne

description: RPG complété 2021. Complète le RPG campagne 2021 pour les départements de la région (ancienne région) Champagne-Ardenne (08, 10, 51, 52). (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2023.
DOI: 10.57745/snklbp
title: Data from the paper entitled 'Barriers to physical activity in children and adults living with type 1 diabetes: a complex link with real-life glycemic excursions".

description: Summary of the methodology : Sixty-two adults, and 53 children/adolescents living with type 1 diabetes along with their parents, completed the BAPAD-1 questionnaire on barriers to PA. Continuous glucose monitoring data were collected during one week of everyday life for 26 adults and 33 children/adolescents. Multiple linear regressions were used to explore links between BAPAD-1 scores and glycemic excursions experienced during and after everyday life self-reported PA sessions, controlling for behavioral (accelerometry) and demographic confounders. For the full methodology, please refer to the paper.
DOI: 10.57745/p0y5hp
title: Newborn piglets. A dataset to study the associations between the physiological traits of piglets and colostrum intake, neonatal survival and preweaning growth"

description: Colostrum intake, mortality within 3 days of birth and preweaning growth rate were recorded on 504 piglets, together with piglet characteristics at birth. A subset of 203 piglets was submitted to blood sampling at birth for physiological analyses. The dataset shows sow traits (parity, litter size…), farrowing traits (piglet birth order…) and piglet morphological and physiological traits, including plasma concentrations of hormones and metabolites. Used in the study by Quesnel et al (submitted)
DOI: 10.57745/pihoia
title: CpG methylation calling of the quail genome

description: These BED files contain methylation fractions and coverage depths for each CpG position and strand of the Coturnix japonica genome that were performed with data produced by using different sequencing technologies, including Illumina Bisulfite sequencing, Enzymatic Methyl-seq, Oxford Nanopore and PacBio Hifi data. The Research Institute for Agriculture, Food and Environment INRAE, with the support of a consortium of private companies and Occitanie region, carried out the SeqOccIn research program.
DOI: 10.57745/pnegqr
title: Allometric Trophic Network Model and ARENA Data for 'From a local descriptive to a generic predictive model of cereal aphid regulation by predators'

description: This dataset contains the ARENA database of 54 wheat fields. For each field, we have aphid and 13 other insect densities (predators and alternative prey), as well as meteorological data (average daily temperature). It also contains a matrix representing the food web in the 54 field, as well as a file containing the bodymasses of the various food web nodes. Finally, this data file contains the 3 versions of the allometric food web model used for the results of the article: 'From a local descriptive to a generic predictive model of cereal aphid regulation by predators' (Stell et al., 2024): the original model, the revised one and the one with MultiFields calibration.
DOI: 10.57745/pvprxj
title: Replication data for : Rise and fall of a multicomponent droplet in a surrounding fluid: Simulation study of a bumpy path

description: Données de simulations numériques permettant de reproduire les figures présentées dans l'article: Rise and fall of a multicomponent droplet in a surrounding fluid: Simulation study of a bumpy path Numerical simulation data needed to reproduce the figures presented in the article: «Rise and fall of a multicomponent droplet in a surrounding fluid: Simulation study of a bumpy path»
DOI: 10.57745/qqjbdd
title: Data and analysis workflow for rind color heterogeneity and microbiota characterisation in the PDO smear-ripened Munster cheese

description: In this study, the color diversity of the PDO Munster was investigated with a special emphasis on heterogeneity and the link with biotic and abiotic factors. To do so, the evolution of the color of 33 Munster cheeses was monitored during storage. In addition, two batches of cheeses produced in the same factory were investigated for a possible link between the rind color heterogeneity and the microbiota, as well as the pH and the salt concentration. Furthermore, two cheeses exhibiting multiple undesirable brown color patches were studied in terms of microbiota composition.
DOI: 10.57745/rbig0i
title: CONSOLE_WP3_Task3.2_ Pan-EU survey of farmers and other rural

description: Data collected from the French farmers’ survey with in addition to the pan-european questions, the choice experiment data. The objective is to better understand their expectations for the implementation of payments for environmental services contracts (PES). The CE was included as a section of a pan-EU survey on the acceptability of agri-environmental-climate contract solutions, conducted in spring 2021 among 130 farmers located in Brittany, Normandy and Pays de La Loire. Voluntary farmers were contacted to organize a face-to-face interview after being recommended by intermediaries (farmers union, organizations of milk producers, farmers associations…). The first section of the survey includes general information on farmer and farm characteristics, and the second section on the impact of contract characteristics on the willingness to adopt contractual solutions. In particular, farmers were asked to state from a scale from 1 to 5 how much would the possibility to collectively agree on environmental targets and measures at landscape-level together with other land managers, and to receive a common payment to be distributed among participants, increase or decrease their willingness to enroll? In this third section dedicated to the CE, respondents were introduced to the context, objective and rules of the game of the CE, and to the contract parameters (those fixed and those varying from one alternative to another). Preliminary questions were included to help the respondents estimating their current levels of management requirements (individual status-quo). The current soil cover duration was calculated from the stated hectares of permanent grasslands, arable crops, permanent crops and total utilised agricultural area (UAA), as well as the average number of days with bare soil on arable lands and proportion of grass cover on the permanent crops surfaces. The current hedgerows density was calculated from the total UAA and total meters of multispecies multilayer hedgerows currently present on the farmland. Farmers were then asked 9 times to choose the preferred option among 2 contract alternatives and the status-quo.
DOI: 10.57745/rra3hl
title: Disease levels in binary mixtures of rice and wheat

description: Pairs of intra-specific plant genotypes (rice or wheat) were grown together and inoculated with various foliar fungal pathogens. Disease levels were measured in focal plants. Thus the phenotype measured (disease level) in focal plants is due to the genotype of this focal plant AND the genotype of the neighbor.
DOI: 10.57745/ryefp2
title: Données supplémentaires du manuscrit de thèse Théo Leprévost - version provisoire

description: Tableaux supplémentaires manuscrit Théo Leprévost - version provisoire
DOI: 10.57745/sdvfrm
title: Contrasting effects of wooded and herbaceous semi-natural habitats on supporting wild bee diversity

description: The aim of the study was to disentangle the effects of landscape composition and farming practices on the taxonomic and functional diversity of wild bees and their possible consequences for pollination potential. We analysed a dataset of 107 crops at whose edges wild bees were captured between 2013 and 2019. Pesticide treatments of each crop were recorded throughout the year. At the landscape level, the proportions of different types of land use were calculated in a circle with a radius of 500 m. The data set is composed of 18 variables of ecological, landscape and farming practices measures.
DOI: 10.57745/sxjtua
title: Types of packaging materials used by Greenyard

description: List of all the previous experiences of Greenyard with other types of packaging for the targeted product.
DOI: 10.57745/t2uhey
title: Plasma Cytokine and Chemokine Levels during Natural Outbreaks of Bovine Respiratory Disease in Young Bulls on Feedlots

description: Abstract of the publication : Bovine Respiratory Disease (BRD) is a leading cause of morbidity and mortality in young cattle upon feedlot arrival. The immune response plays a dual role in infection control and lung tissue damage, but few studies have assessed cytokine levels during natural BRD outbreaks. Advances in multiplexed assays now allow for broader cytokine and chemokine profiling in cattle. In this nested case-control study, 184 young bulls from nine French fattening farms were clinically assessed and underwent thoracic ultrasonography (TUS) weekly during the first month on feed. BRD cases (n = 98) and matched healthy controls (n = 86) were selected based on clinical signs. Fifteen cytokines and chemokines were quantified in plasma using a bovine-specific bead-based multiplex assay, on the day an animal was first detected as sick and in its matched control sampled on the same day. BRD-associated pathogens were assessed using qPCR on nasal swabs and paired serology. The link between cytokines and clinical, microbiological, and preconditioning (vaccination and preventive antibiotic treatment) variables was investigated using the Wilcoxon-Mann-Whitney test, mixed-effects linear regression models, and multivariate clustering. Cytokine and chemokine levels did not distinguish clinically sick from healthy animals. No specific cytokine profile was associated with infection by a given pathogen. However, IL-17A and IFN-γ concentrations were positively associated with treatment relapse and disease severity, suggesting that they may have prognostic potential. Cluster analysis revealed three subgroups with distinct cytokine patterns and health outcomes, in association with preconditioning variables, highlighting the critical role of these interventions in shaping the immune response during BRD outbreaks. This study is the first to report the measurement of such a wide range of cytokines during spontaneous BRD episodes in young bulls. While not diagnostic when considered individually, cytokine profiles may hold prognostic value and could be integrated into multimodal risk stratification tools, in combination with clinical, microbiological data, and TUS results, to improve BRD management in the field. Preconditioning practices, such as vaccination or preventive antibiotic administration, significantly influence early immune responses and should further be investigated to refine prevention strategies and individualize health monitoring protocols at feedlot entry.
DOI: 10.57745/t3bnb7
title: RPG complété 2018 département 2A

description: RPG complété 2018. Complète le RPG campagne 2018 pour le département 2A. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2020.