cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15454/tevec3
title: La flore adventice associée au semis direct sous couvert. Enquête sur un réseau d'agriculteurs en Bourgogne-Franche-Comté: 2018-2019.

description: Les données contenues dans ce jeu de données correspondent aux observations faites lors de relevés de flore effectués sur les parcelles d’un réseau de soixante-deux agriculteurs en agriculture de conservation de la région Bourgogne-Franche et du département de la Haute Marne. Cent soixante-seize parcelles ont été échantillonnées (134 en blé tendre et 42 en soja) deux à trois fois au cours de l’année culturale. Ce sont 452 relevés floristiques qui ont ainsi été réalisés au cours de deux années successives (2018 et 2019).
DOI: 10.15454/tlc4ph
title: RPG complété 2018 département 83

description: RPG complété 2018. Complète le RPG campagne 2018 pour le département 83. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2020.
DOI: 10.15454/tvth1m
title: RPG complété 2018 département 69

description: RPG complété 2018. Complète le RPG campagne 2018 pour le département 69. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2020.
DOI: 10.15454/tzgrbr
title: Growth and reproduction data of sessile oak forests (Quercus petraea) distributed along a gradient of elevation (French Pyrenees - in situ) and in a common garden experiment (Toulenne, France).

description: This dataset describes the mean annual fructification, the mean seed mass and the mean increment in height and diameter of sessile oak populations (Quercus petraea) from two experimental designs: (1) along a gradient of elevation situated in the French Pyrenees and (2) within a common garden experiment situated at the Experimental Unit of Toulenne (France). Reproductive traits have been monitored during 6 years (from 2014 to 2019) for both designs.
DOI: 10.15454/s3rnp0
title: RPG complété 2019 département 43

description: RPG complété 2019. Complète le RPG campagne 2019 pour le département 43. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2021.
DOI: 10.15454/tvwbcq
title: Viral metagenomic data for comparison of two viral sequence enrichment approaches

description: This study aims at comparing the performance of two viral sequence enrichment approaches, double-stranded RNA (dsRNA) and Virion-associated nucleic acids (VANA) purification for the description of the viromes in various complex plant pools. In total 12 libraries were prepared for dsRNA, 12 libraries for VANA and one blank pool library for all the negative control. The samples were sequenced on an Illumina HiSeq 3000 system at the GenoToul platform (INRA Toulouse, France).
DOI: 10.15454/ucrged
title: Spatial modeling of biological patterns shows multiscale organization of Arabidopsis thaliana heterochromatin: main source code.

description: This dataset contains the source code of a program for the statistical spatial analysis of objects patterns from 3D images. An executable version of the program, compiled for Ubuntu 18.04, is also included. The program has been applied to analyze the 3D spatial arrangement of chromocenters in Arabidopsis thaliana plantlet cell nuclei (coll. Valérie Gaudin, INRAE). This work is currently under review.
DOI: 10.15454/ujpcov
title: Phenology, outer fruit and inner fruit traits in the FBo-Hi elite material

description: This dataset contains phenotypic data for apple progenies originating from six European breeding programs. A total of 1018 progenies from 23 biparental combinations were phenotyped for at least one trait. Five traits, fruit over-color, fruit acidity, fruit crispness, fruit juiciness and harvest date, are made available in this dataset. The data were obtained between 2003 and 2005 during the HiDRAS (Hi) project. More details about the phenotyping procedure can be found in Kouassi et al. (2009) and Muranty et al. (2015). This dataset was used in the paper by Cazenave et al. (2021) "Combining genetic resources and elite material populations to improve the accuracy of genomic prediction in apple".
DOI: 10.15454/s7qt5h
title: RPG complété 2018 département 56

description: RPG complété 2018. Complète le RPG campagne 2018 pour le département 56. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2020.
DOI: 10.15454/tkmi53
title: Coturnix japonica - VCF reference dataset

description: A reference VCF file for Coturnix japonica based on 20 public samples. The raw file has been filtered with snpSift filter countVariant&gt;=4 Tools : Fastp : 0.21.0 BWA : 0.7.17-r1188 elprep : 5.1.1 compiled with go1.17 GATK : 4.2.2.0 HTSJDK : 2.24.1 Picard : 2.25.4 SnpEff : 4.3t Genome : http://ftp.ensembl.org/pub/release-105/fasta/coturnix_japonica/dna/Coturnix_japonica.Coturnix_japonica_2.0.dna.toplevel.fa.gz Lot Run AGE Assay Type Bases BioProject BioSample LibrarySelection LibrarySource 1_4 SRR13858145 10 weeks WGS 19180892700 PRJNA706434 SAMN18132322 Quail DNA male 5_12 DRR140491 NA WGS 33671461800 PRJDB7083 SAMD00127316 white eggshell male 5_12 DRR140475 NA WGS 11815478100 PRJDB7083 SAMD00127317 wild type eggshell female 5_12 DRR140476 NA WGS 14138309700 PRJDB7083 SAMD00127318 wild type eggshell female 5_12 DRR140477 NA WGS 15776136600 PRJDB7083 SAMD00127320 white eggshell female 5_12 DRR140474 NA WGS 11019546600 PRJDB7083 SAMD00127323 white eggshell female 13_16 SRR8224502 NA WGS 21936329100 PRJNA506074 SAMN10449646 Lethal Yellow H na 13_16 SRR8224505 NA WGS 15341037300 PRJNA506074 SAMN10449643 Fawn na 17_118 SRR5460177 adult WGS 27996336900 PRJNA339911 SAMN06756391 Coturnix japonica_yellow_male_5 male 17_118 SRR5460180 adult WGS 25659766080 PRJNA339911 SAMN06756393 Coturnix japonica_marron_female_2 female 17_118 SRR5460232 young WGS 24106632300 PRJNA339911 SAMN06756404 Coturnix japonica_yellow_female_8 female 17_118 SRR5460233 young WGS 25431708900 PRJNA339911 SAMN06756419 Coturnix japonica_marron_male_8 male 17_118 SRR6974347 not applicable WGS 25655201100 PRJNA339911 SAMN08892713 eggquail_Egg_117283_M_new male 17_118 SRR6974343 not applicable WGS 29769724800 PRJNA339911 SAMN08892717 eggquail_E_59181_M_new male 17_118 SRR6974334 not applicable WGS 30710747100 PRJNA339911 SAMN08892725 meatquail_1262526_F_new female 17_118 SRR6974327 not applicable WGS 38353153800 PRJNA339911 SAMN08892728 meatquail_1262550_M_new male 17_118 SRR6974352 not applicable WGS 25353056700 PRJNA339911 SAMN08892735 wildquail_1604_F_new female 17_118 SRR6974355 not applicable WGS 25740976800 PRJNA339911 SAMN08892738 wildquail_8601_M_new male 119_120 DRR055129 not applicable WGS 20421975400 PRJDB2313 SAMD00009971 na female 121_127 SRR2162767 15 months WGS 12128137200 PRJNA292031 SAMN03989050 ConsD male 121_127 SRR2162768 15 months WGS 13731757200 PRJNA292031 SAMN03989050 ConsD male
DOI: 10.15454/skwvz2
title: RPG complété 2018 département 94

description: RPG complété 2018. Complète le RPG campagne 2018 pour le département 94. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2020
DOI: 10.15454/t5j8ep
title: Annotation data about Multi Criteria Assessment Methods used in Science for Plant Biology and Breeding: the French National Institute for Agricultural Research (INRA-BAP) experience

description: This data article contains annotation data characterizing Multi Criteria Assessment Methods proposed in the scientific literature by INRA researchers belonging to the Plant Biology and Breeding department.
DOI: 10.15454/tfp78u
title: Regional Business Concepts - Data for mapping of the potential in Europe

description: This dataset contains excel files with the data that have been used to elaborate different figures in deliverable 6.3: - Regional Business Concept for polyphenol extraction from wine pomace and use of residues: mapping of the potential in the main wine producing countries in Europe”. - Regional Business Concept for biogas and PHA production: mapping of the potential in Europe”. - Excel file with a summary of the data used to elaborate the mapping with the software Tableau.
DOI: 10.15454/tkoukh
title: Chamser Kangri glacier forefield dataset

description: This dataset includes analyses from four soil samples collected in 2017 along a chronosequence (0 to 150 years) in the Chamser Kangri glacier forefield. Our samples were collected in the southwestern extension of the Tibetan Plateau on the northern slope of Chamser Kangri peak (6645 m a.s.l.) belonging to the Lungser Range above Tso Moriri lake. We examined 4 soils, 4 water samples and parent material (rocks). The dataset includes information on the enzymatic activity, parent material, chemistry, particle size distribution, phosphorus concentrations and stocks, and oxygen isotopic values of water and phosphate. The data set is in long format comprising all information we have collected from the studied sites in 1-3 replicates. The collected data allowed to investigate biological phosphorus transformations over the studied chronosequence.
DOI: 10.15454/u9kjew
title: Raw data for the paper "Seasonal and long-term consequences of esca on grapevine stem xylem integrity"

description: The files contain raw data used in the paper "Seasonal and long-term consequences of esca on grapevine stem xylem integrity". There are 4 datasets and 4 associated text files describing the variables. The "kskt_data.csv" dataset includes stem specific hydraulic conductivity (ks), stem specific theoretical hydraulic conductivity (kth), and total vessel density in grapevine during esca pathogenesis. "kskt_data_description.txt" is the text file describing the variables. The "microCT_data.csv" dataset includes the quantification of stem PLC (i.e. percentage loss of conductivity) using X-ray microCT. "microCT_data_description.txt" is the text file describing the variables. The "pathogen_detection_data.csv" dataset includes the quantification of esca vascular pathogens in the perennial trunks using qPCR Note that the quantification in stems are not reported as all stems presented 0 [pg ng-1] for both pathogens. "pathogen_detection_data_description.txt" is the text file describing the variables. The "vessel_density_data.csv" dataset includes the quantification of vessel density per class of diameter (µm). The "vessel_density_data_description.txt" is the text file describing the variables.
DOI: 10.15454/uacj2i
title: RPG complété 2018 département 47

description: RPG complété 2018. Complète le RPG campagne 2018 pour le département 47. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2020.
DOI: 10.15454/ubsquk
title: Polygenic adaptation and negative selection across traits, years and environments in a long-lived plant species (Pinus pinaster Ait., Pinaceae)

description: SNP genotypes of clones in the CLONAPIN common garden network
DOI: 10.15454/unufwy
title: Data supplementing the article “Aquatic biofilms as passive environmental DNA samplers: application to benthic macroinvertebrate communities in rivers” - Macroinvertebrate reference library

description: These data supplement the article “Exploring the capacity of aquatic biofilms to act as environmental DNA samplers: test on macroinvertebrate communities in rivers” Sinziana F. Rivera, Valentin Vasselon, Nathalie Mary, Olivier Monnier, Fréderic Rimet & Agnès Bouchez submitted to Stoten journal. ----------------------------------------- The directory contains a curated macroinvertebrate reference library targeting a 461 bp fragment (including primers) of the mitochondrial cytochrome c oxidase subunit I gene (COI). The reference library contains 15,399 DNA sequences from 5 phyla, 11 classes, 19 orders, 526 families and 2974 macroinvertebrate genera. ----------------------------------------- “COI_04719_tax.tax”: text-based file containing the taxonomic affiliation of each nucleotide sequences from the reference library ----------------------------------------- “COI_04719seqs.fasta”: text-based file containing all the nucleotide sequences from the reference library
DOI: 10.15454/t9dw8y
title: Pet-directed speech improves horses' attention toward humans

description: Data associated with the article 'Pet-directed speech improves horses' attention toward humans' accepted for publication in the journal Scientific Reports
DOI: 10.15454/tp7de1
title: The data rainfall at the level of the trap of mill of princes on Scorff river (Morbihan - France)

description: The data rainfall at the level of the trap of mill of princes on Scorff river collected for the Environmental Research Observatory (ERO) on Diadromous Fish in Coastal rivers (DiaPFC). ORE DiaPFC is a research infrastructure focused on studying the evolution of diadromous fish populations under the influence of human-induced and environmental changes (mainly agriculture and climate). Sampling is conducted at 5 sites spread along the mainstem, one since 1995 and others since 2005 and later. Scorff River: Latitude ranges from 47.7718 to 48.1682; longitude ranges from -3.2497 to -3.3404 and elevation range from 0 and 144 metres. The Scorff River is a small coastal river in southern Brittany (France). The main river is 78.6km long, including a 15km estuary. The mean gradient is 3.6%, annual mean discharge is 5m3/s and the drainage basin area has an area of 480km2. Agriculture is the main human activity and land use, with several areas of moors and forests. file with date and time of an automatic rain gauge switchover to 0.2 mm rainfall
DOI: 10.15454/u7xoom
title: RPG complété 2018 département 08

description: RPG complété 2018. Complète le RPG campagne 2018 pour le département 08. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2020.
DOI: 10.15454/vfsst3
title: Functional effect of vaterite - The presence of an alternative crystalline structure in otolith alters escape kinematics of the brown trout (Salmo trutta)

description: Using juvenile (0+ years) Salmo trutta originating from the wild in experimental conditions, we report for the first time that the deposition of calcium carbonate in its crystalline vateritic polymorph has pervasive significant effect on the escape kinematics of fish. The presence of an alternative crystalline structure in otolith is therefore suspected to alter fish's behavior in ways that decrease their chances of survival. We also report that altered behavior in vateritic individuals is partially compensated in presence of a functional lateral line (compared with the same individuals with lateral line chemically inhibited)
DOI: 10.6084/m9.figshare.29261450.v1
title: Introductory Latin Personalized GenAI Tool Dataset

description: These spreadsheets are a collection of the 321 Latin words included in the Introductory Latin Language (Latin 1) module at the University of Reading. All words are fully declined and conjugated with all inflected forms that are covered in the module.All words, definitions, and inflected forms were collected from the relevant Wiktionary entries.This dataset was used to test the efficacy of creating a personalized GenAI tool using OpenAI's GPTs and Google's Gems.
DOI: 10.15454/szxbma
title: French survey on production contract in agriculture

description: Questionnaire d'enquête en français sur les usages des contrats de production par des filières du végétal, adressé en ligne au cours de l'été 2021. Ce questionnaire a pour objectif de recueillir des informations sur les modalités d’usage des contrats de production et leurs impacts. Nous désignons par "contrat de production" tout contrat signé avant semis ou plantation entre un Vendeur et un Acheteur s’entendant sur un prix, une quantité et des conditions spécifiques liées aux qualités recherchées sur le bien agricole échangé, et/ou à ses conditions de production et/ou de collecte/stockage/tri.
DOI: 10.15454/tpaxmu
title: Medicago sativa cv. Mercedes genome portal

description: An alfalfa (or lucerne) genome reference sequence is an essential tool for breeding of this major legume species. The clone “Mercedes2.11” of Flemish origin has been sequenced and the genome assembly has been carried out with NRGene protocols. A total of almost 190 000 scaffolds have been generated and this genome assembly reaches 2.6 Gb (80% of the 3.2 Gb expected). Genome annotation has provided 233 049 protein-coding genes and 36 752 non-protein coding genes. This genome portal based on JBrowse has been developed for searching the annotated genome.
DOI: 10.15454/trbvmd
title: PlantSyntenyViewer Solanaceae submission file

description: Submission file of Solanaceae botanic family (17 proto-chromosomes) in PlantSyntenyViewer
DOI: 10.15454/ubvadd
title: RPG complété 2018 département 44

description: RPG complété 2018. Complète le RPG campagne 2018 pour le département 44. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2020.
DOI: 10.15454/uou4to
title: Monolith Aggregate Stability

description: Soil aggregate stability on samples from topsoil and subsoil at six altitudes along an elevational gradient at the Massif de Belledonne, France
DOI: 10.15454/uvjh39
title: Yield of bovine carcasses

description: This dataset describes weights of animals and of their carcasses to calculate carcasse yield for different bovine breeds and animal types
DOI: 10.15454/waeima
title: Code for the article "An epi-evolutionary model to predict spore-producing pathogens adaptation to quantitative resistance in heterogeneous environments" by F. Fabre, J.-B. Burie, A. Ducrot, S. Lion, Q. Richard and R. Djidjou-Demasse

description: MATLAB codes for reproducing the simulations and main figures described in Fabre et al. 2022. An epi-evolutionary model for predicting the adaptation of spore-producing pathogens to quantitative resistance in heterogeneous. Evolutionary Applications, 15(1), 95-110. https://doi.org/10.1111/eva.13328
DOI: 10.15454/tmp0h0
title: RPG complété 2019 département 60

description: RPG complété 2019. Complète le RPG campagne 2019 pour le département 60. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2021.
DOI: 10.15454/tp8qj4
title: Data on early survival and tree dimensions of 6 species and their provenances planted in 14 arboreta in France

description: To anticipate European climate scenarios for the end of the century, the REINFFORCE (RÉseau INFrastructure de recherche pour le suivi et l’adaptation des FORêts au Changement climatiquE) arboreta network was established. This data set contains data from in 10 sites, where 6 selected tree species are represented. This data allow to calculate survival and growth. This data will help to identify those species that are more tolerant of climate variation and those of which the growth and survival future climate might constrain.
DOI: 10.15454/ufupk4
title: RPG complété 2019 département 58

description: RPG complété 2019. Complète le RPG campagne 2019 pour le département 58. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2021.
DOI: 10.15454/vgydim
title: Hydroacoustic survey on lakes Annecy and Bourget, 38, 70 and 200 kHz, September 2016

description: Data from OLA, Observatory of Lakes (http://www6.inra.fr/soere-ola, ©SOERE OLA-IS, AnaEE-France, INRA Thonon-les-Bains, CISALB, CIPEL, SILA, developed by Eco-Informatics ORE INRA Team). The data acquisition surveys were performed in 2016, in France, on Lakes Annecy (45°51’24’’N; 06°10’20’’E) and Bourget (45°43’55’’N; 5°52’06’’) from September 12th to 15th and 26th to 30th, respectively. The hydroacoustic data were collected at 38, 70 and 200 kHz using Simrad echo sounders (EK60, ER60) and transducers (ES38-7B, ES70-7C and ES200-7C). The transducers were set in a frame to beam vertically, as close as possible to maximize sampling volume overlap. The frame was pole mounted on the vessel. The transducers were immerged to 0.70 m depth. Pulse lengths were set to 0.256 ms (Godlewska et al., 2011) and transmitted at 5 Hz with a transmitting power of 100 W. Calibration was performed for all frequencies according to the standard protocol of Foote et al. (1987) and the manufacturer manual before survey in both lakes. Calibration results agreed well with previous tank calibrations at Ifremer (Brest). The surveys were performed in calm to moderate wind conditions at a speed of about 8 km.h-1 using zig-zag (Lake Bourget survey) and parallel transects (Lake Annecy survey) designs.
DOI: 10.15454/vwzbuf
title: Supplementary material for the "A global phylogenomic and metabolic reconstruction of the large intestine bacterial community of domesticated cattle " manuscript

description: This is the full supplementary material for the manuscript entitled "A global phylogenomic and metabolic reconstruction of the large intestine bacterial community of domesticated cattle " which was sent for peer-reviewing in March 2022.
DOI: 10.15454/wbqx7z
title: Experimental activity of the pilot plant platform reported in the deliverable 3.3

description: The dataset includes the tables concerning the experimental activity reported in the deliverable 3.3, the data produced includes more than one year of operation of the pilot plant platform, two main periods were considered here according to the progressive optimizations of the pilot plant platform. The description of the experimental periods is reported below: - the first experimental part during in which the whole mass balance of the system was studied in order to determine the feasibility of the process and the future perspectives in terms of scalability. - the second experimental period was dedicated to the optimization of the pilot plant so to achieve better yields in its different steps. Many components, such as pipes/pumps and valves, were changed in order to achieve better performance in the daily operations and better control of every single unit. Moreover, the PHA production step was put under automatic control so to optimise the single operations.
DOI: 10.15454/stjh47
title: Data set for targeted analyses

description: Analyses of major compounds of leaf of sunflower plants cultivated outdoors in a phenotyping facility in well-watered or water-deficit conditions. Analyses performed on 24 genotypes (8 lines and their corresponding 16 hybrids) using targeted robotized analyses of leaf extracts.
DOI: 10.15454/trbjtb
title: BRC4Env, the Biological Resource Centre for the Environment

description: BRC4Env, the network of Biological Resource Centres for the Environment, aims at storing and providing environmental resources (biological material and associated data), in a secure way and an optimal traceability. BRC4Env supports both fundamental and applied research based on agro-environmental bioresources. These biological and/or genomic resources are sampled from soils, sediments, waters, agricultural ecosystems, and preserved in organized collections. They include microorganisms, as well as animal and plant resources, whose management or spreading do not directly depend from human intervention. BRC4Env provides these resources available for researchers from academia, but also industry and forces of civil society. BRC4Env is one of the pillars of the French national infrastructure "Agricultural Resources for Research" (AgroBRC-RARe).