cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15454/yaxxyh
title: Data on structure and farming practices of French organic vegetable farms, with focus on the use of inputs and the socio-economic context

description: Data were collected using an online survey sent to farmers from April-July 2019
DOI: 10.15454/yufpfd
title: CIRCASA DELIVERABLE D1.3 “The science base of a strategic research agenda - Executive Summary”

description: A summary presenting the challenges for soil carbon sequestration research, hypothesis to be further tested and key research (and innovation) products.
DOI: 10.15454/wvujp5
title: RPG complété 2019 département 76

description: RPG complété 2019. Complète le RPG campagne 2019 pour le département 76. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2021.
DOI: 10.15454/xtihb5
title: TWS enrichment sequencing data archive

description: Raw sequencing data associated with a paper. Enrichment of a termite-originated bacterial community in bioreactor under anareobic conditions, with wheat straw as sole carbon source. Data produced with an Illumina MiSeq Samples names : (a and b stand for biological replicates) - GUTS : Nasutitermes ephratae gut content (rDNA) - TM : community final state after the first cultivation cycle (rDNA) - NSS-Cn : community final state after n cultivation cycles with non-sterile straw (rDNA) - SS-Cn : community final state after n cultivation cycles with sterile straw (rDNA) - TWS_dayN : active community state at day N (rRNA)
DOI: 10.15454/xvcick
title: RPG complété 2019 département 79

description: RPG complété 2019. Complète le RPG campagne 2019 pour le département 79. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2021.
DOI: 10.15454/y7stkk
title: Bioelectromethanogenesis reaction in a tubular Microbial Electrolysis Cell (MEC) for biogas upgrading, datasets from the journal article Renewable Energy 158 (2020) 23-31

description: The dataset includes the raw data about table and figures from the article "M. Zeppilli, L. Cristiani, E. Dell’Armi, M. Majone, Bioelectromethanogenesis reaction in a tubular Microbial Electrolysis Cell (MEC) for biogas upgrading, Renewable Energy 158 (2020) 23-31"
DOI: 10.15454/ykrmgv
title: MeatPartTool Software: code source

description: This zip file corresponds to the source code of the MeatPartTool software. The code is in Python and is free to access.
DOI: 10.15454/ytrkv6
title: Water use-related traits in a bi-parental population of grapevine (cv Syrah X cv Grenache)

description: This dataset comes from a pseudo-F1 progeny of 186 two year-old genotypes obtained as the first generation from a reciprocal cross between the grapevine (Vitis vinifera L.) cultivars Syrah and Grenache (Adam-Blondon et al., 2004; Fournier-Level et al., 2009). In 2012 and 2013, six and five clones, respectively, of each genotype (all offsprings and the two parents) were phenotyped as replicates in randomized blocks into the PHENOARCH high-throughput phenotyping platform (https://www6.montpellier.inrae.fr/lepse_eng/M3P). Two watering scenarios were imposed by maintaining soil water content in pots at target values using watering stations coupled to weighing terminals. Daily water loss by transpiration was recorded for each potted plant using variation in weigh after correction for soil evaporation determined on empty pots. Individual plant dry weight was calculated daily using image taken in the platform and processed for conversion into biomass. Total water loss by transpiration and increase in dry biomass per plant were calculated over a period of 10–15 days when soil water content had stabilized. Whole plant transpiration efficiency was determined as the ratio between biomass increase and the total amount of transpired water over the same period. Nighttime transpiration, daytime transpiration and midday leaf water potential were measured on a specific day when the plants were taken off the platform and placed into a chamber to ensure stable and repeatable climatic conditions. Soil-to-leaf hydraulic conductance was then deduced from daytime transpiration and leaf water potential using the conventional, evaporative flux method for the whole path from soil to transpiring leaves. This work was supported by funding from the project Long Term Impacts and Adaptations to Climate Change in Viticulture and Oenology (LACCAVE) of the French National Institute for Agricultural Research (INRA) and by Grant ANR-09-GENM-024-002 from the French National Research Agency. Aude Coupel-Ledru received a PhD grant from the French government. Along with genotypic data (Huang et al., 2012) for QTL detection, this dataset was used to explore: (i) The genetic and physiological origins of iso vs anisohydric behaviours (Coupel-Ledru et al., 2014 J Exp Bot), (ii) The role of abscisic acid in the control of isohydry through the regulation of hydraulic conductance (Coupel-Ledru et al., 2017 Plant Phy) (iii) The genetic architecture of nighttime transpiration and its impact on water-use efficiency (Coupel-Ledru et al., 2016 PNAS) This dataset was also re-analysed using univariate and multivariate methods for genomic prediction and QTL detection with denser genotyping data (Brault et al., 2021).
DOI: 10.15454/z9rw2m
title: Near infrared spectra of organic waste and plant samples acquired on different spectrometers

description: A set of 127 organic samples was selected to cover a large range of variation. Spectra were acquired on three different spectrometers in three labs: NIRFlex N-500 FT-NIR (BUCHI, France, serial number 1000001305) at LBE in Narbonne, NIR-System5000 (FOSS, Denmark, serial number 94630632) at SELMET in Montpellier and ANTARIS II FT-NIR (ThermoFisher Scientific, USA, serial number AHY0800337) at IJPB in Versailles.
DOI: 10.15454/vdnrh6
title: Scientific arguments about food packaging functionalities for fresh strawberries - Food packaging expert’s arguments for all packagings
DOI: 10.15454/w4xfpf
title: EPITREE project - WGS SNPs Oak

description: In the EPITREE project (https://www6.inrae.fr/epitree-project/Le-projet-EPITREE) we aim at studying the distribution of methylation sites in 10 oak (Q. petraea) genomes. To do so, we had to discriminate between true C/T SNPs and C&gt;T substitutions caused by bisulfite conversion which can lead to misidentified unmethylated Cs. Thus, we performed a global SNPs detection and considered three SNP calling algorithms: bcfTools , FreeBayes and GATK. In order to accuratly identify polymorphisms in these 10 genomes, we selected SNPs identified by the three calling algorithms. We ended up with 15,727,742 SNPs. These SNPs are placed on the 1408 oak scafflods.
DOI: 10.15454/xgu22l
title: DSC raw data of thermograms of PHB, PHBV3% commercial products and PHBV18%

description: DSC thermograms of PHB, PHBV3% commercial products and PHBV18% produced from mixed feedstock (where P1 and P2 indicate one or two purification steps respectively), after a first heating at Tmax.
DOI: 10.15454/xwcmze
title: Raw data for "Phenotypic heterogeneity can be triggered by the molecular switch XylR during Escherichia coli adaptation from glucose to xylose" paper

description: Zip archive including : - files Data Fig1.xlsx ... Data Fig5.xlsx which contain data used for figures 1 to 5 of the paper - directory CytoFile which contains raw cytometric data of figures 4
DOI: 10.15454/xzwvm8
title: Plankton, water temperature and orthophosphorus concentration from Lake Geneva (1974-2004)

description: The data set was produced from observations from the infrastructure OLA (Observation and experimentation on LAkes) on the site Lake Geneva in the ecosystem lake. Measurements are about the following variables: dissolved orthophosphorus mass concentration, water temperature, zooplankton
DOI: 10.15454/y9vt76
title: Dataset from Deliverable 6.2

description: The dataset includes the pictures, the figures and the table reported in the deliverable 6.2 "Demonstration trial of integrated technology chain".
DOI: 10.15454/yfdwir
title: RPG complété 2019 département 46

description: RPG complété 2019. Complète le RPG campagne 2019 pour le département 46. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2021.
DOI: 10.15454/yj33jc
title: Data on agronomic traits, biochemical composition of lipids, proteins and polysaccharides and rheological measurement in a brown mustard seed collection

description: This data set contains 3 tabular data files (csv files): "Mustard_data_mean-values.csv" and "Mustard_data_technical-repetition-values.csv" which contain agronomical, biochemical and rheological data and "Mustard_data_genotyping.csv" which contains genotyping data.
DOI: 10.15454/x0k0md
title: RPG complété 2019 département 77

description: RPG complété 2019. Complète le RPG campagne 2019 pour le département 77. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2021.
DOI: 10.15454/xemdld
title: Development of SNP markers for the identification of chestnut species, hybrids and varieties

description: Three chestnut species (Castanea sativa, Castanea crenata and Castanea mollissima) and their hybrids have been massively planted worldwide for nut production. To better study and manage these trees, we identified nuclear single nucleotide polymorphism (SNP) markers using restriction-associated DNA sequencing. Out of 343 loci tested using the MassARRAY platform, 237 were successfully typed. Two sets of multiplexed SNP markers were then selected that include 79 polymorphic markers, 68 of which withhold stringent quality criteria such as quasi-systematic amplification across species and Mendelian segregation in both purebred and hybrid individuals. They provide sufficient power for species, hybrids and backcross characterization as well as for clonal identification, as shown by a comparison with a dataset including 94 single sequenced repeat (SSR) loci.
DOI: 10.15454/xlq40g
title: Life-forms, cell-sizes and ecological guilds of diatoms in European rivers

description: Diatoms are a very diverse group of microalgae that encompass about 100 000 taxa. This makes an excellent bioindicator especially of rivers. The majority of biotic indices based on diatoms are constructed on species pollution-sensitivities. Nevertheless, recent studies showed the interest to use complementary metrics for biomonitoring: life-forms, cell-sizes and ecological guilds. Unfortunately, taxa memberships to such metrics are scattered in numerous floras and papers. Therefore, studies using such metrics often referred to grey literature or home-made checklists. The objective of this paper is to make available to the scientific community an important check-list of taxa frequently observed in European rivers with their memberships to these metrics. After defining these metrics, 1115 taxa were codified using Biofresh and Omnidia codes in an Excel file. Metrics memberships were then explored in a taxonomical framework. It clearly appears that metrics memberships are determined by taxonomy. Lifeforms and cell sizes taxa memberships and their study in the framework of evolutionary history of diatoms is a field that is worth studying for a better understanding of diatoms ecology. Such inputs should be beneficial for the future improvement of diatom-based monitoring tools. This check-list is integrated in the Diat.barcode library, a reference DNA barcode library dedicated to diatoms : https://www6.inra.fr/carrtel-collection_eng/Barcoding-database https://data.inrae.fr/dataset.xhtml?persistentId=doi%3A10.15454%2FTOMBYZ
DOI: 10.15454/yjlfzi
title: Publish data through semantic web

description: The purpose of this document is to explain, on a concrete manner, how to publish data in the semantic web with fairly easy-to-use tools such as those presented in this document. A brief explanation on what is semantic web is delivered and then the complete methodology is explained using an example of publication of metadata on soil physical analyses. The reader must be aware that this work is still on-going and this document must be seen only as an example of using the different tools that are presented in it.
DOI: 10.15454/z6uml7
title: Data_Repository_¨TCDDPCBdepuration_Ewes_FAC

description: Individual Data Repository
DOI: 10.15454/zpgcpk
title: Ammonium Recovery and Biogas Upgrading in a Tubular Micro-Pilot Microbial Electrolysis Cell (MEC), dataset from the journal article Molecules 25 (2020) 2723

description: The dataset includes the raw data about table and figures from the article " L. Cristiani, M. Zeppilli, C. Porcu, M. Majone, Ammonium Recovery and Biogas Upgrading in a Tubular Micro-Pilot Microbial Electrolysis Cell (MEC), Molecules 25 (2020) 2723".
DOI: 10.15454/yjgbga
title: RPG complété 2018 département 48

description: RPG complété 2018. Complète le RPG campagne 2018 pour le département 48. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2020.
DOI: 10.15454/yrhl93
title: ProtOLAP

description: This software generates automatically the PostgreSQL schema and XML Mondrian schema from a model of data warehouse represented with the UML profile ICSOLAP
DOI: 10.15454/yysvka
title: RPG complété 2019 département 85

description: RPG complété 2019. Complète le RPG campagne 2019 pour le département 85. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2021.
DOI: 10.5281/zenodo.15612234
title: Replication Data for: The data-driven decision-making, sustainable value creation, and international firm performance: micro-level evidence based on AI language models

description: This contains the data and code to replicate the findings of the paper "The data-driven decision-making, sustainable value creation, and international firm performance: micro-level evidence based on AI language models"
DOI: 10.5281/zenodo.15612235
title: Replication Data for: The data-driven decision-making, sustainable value creation, and international firm performance: micro-level evidence based on AI language models

description: This contains the data and code to replicate the findings of the paper "The data-driven decision-making, sustainable value creation, and international firm performance: micro-level evidence based on AI language models"
DOI: 10.15454/xrnws3
title: RPG complété 2018 département 74

description: RPG complété 2018. Complète le RPG campagne 2018 pour le département 74. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2020.
DOI: 10.15454/xrxshl
title: Datasets associated with innovative approaches to turn agricultural waste into eco-logical and economic assets

description: Bearing in mind the terms of the H2020 Horizon NoAW project, based on the near zero-waste society and the promotion of circular economy in agro-waste management, one of the tasks under WP2 is the assessment of territorial impacts of the Agro-Waste Management Plan (AWMP) on the environment in the strategic planning of agro-waste management. The objective of the terri-torial impact assessment on the strategic planning level is directly connected with the decision making process. Such processes serve for possible direct-ing of the planning and management of agro waste in the earliest phase of conceptualizing the development possibilities (in the organizational phase that precedes the act of choosing the processing and re-usage technology or the agro-waste elimination technology. The objective of this deliverable is to apply the multi-criteria evaluation meth-od (MCE) in the process of strategic environmental assessment (SEA) for the purpose of devising Agro-Waste Management Plan (AWMP) supported by a Geographic Information System (GIS), i.e. to present one of several envi-ronmental impact assessment methods under WP2. This deliverable will constitute a part of the analysis of the possible application of different meth-ods of environmental impact assessment and their mutual complementation for the purpose of making optimal decisions on future waste management planning. This objective is in line with the objective related to the contribution in creating hybrid tools for environmental assessment to be develop under WP2 on the same case study, that together will open greater possibilities to decision-makers on vineyard waste management. This dataset includes some datafiles produced during the realization of D2.3.
DOI: 10.15454/y7um0o
title: RPG complété 2018 département 68

description: RPG complété 2018. Complète le RPG campagne 2018 pour le département 68. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2020.
DOI: 10.15454/y8jjec
title: Lake surface water temperature of Lake Geneva, Lake Bourget, Lake Annecy and Lake Aiguebelette

description: The dataset contains lake surface water temperature of four Alpine lakes (Lake Geneva, Lake Bourget, Lake Annecy and Lake Aiguebelette). These data have been collected from 1974 to 2017 as part of longterm monitoring projects conducted by INRA and Observatory on alpine lakes (SOERE OLA).
DOI: 10.15454/yg57qf
title: Etude Place des agricultures européennes à l'horion 2050

description: Données de l'étude AE2050
DOI: 10.15454/yhgxfc
title: RPG complété 2018 département 04

description: RPG complété 2018. Complète le RPG campagne 2018 pour le département 04. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2020.
DOI: 10.15454/z2k0or
title: Gene ontology of hepatic differentially abundant proteins during the transition to lactation, between different fatty acid treatments, and their interaction in Holstein cows, https://doi.org/10.1016/j.jprot.2021.104435

description: Longitudinal liver proteome collected at 4 time points (d -21, +1, +28, and +63 relative to parturition) from Holstein cows treated with abomasal infusions of coconut oil (CTRL) mixture of essential fatty acids and conjugated linoleic acids. The file contains protein descriptions, raw intensities, associated gene names, peptide count, differentially abundant proteins assessed by repeated measurements ANOVA-simultaneous component analysis, and Gene Ontology (GO) and functional enrichment analysis during the transition to lactation, between CTRL and EFA+CLA, and their interaction.
DOI: 10.57745/0reqvx
title: Supplementary Data to Dorbani et al. (2023) submitted

description: Two tables related to Dorbani et al. (2022) submitted to International Journal of Food Microbiology in July 2023 - Table 1 contains the data used to draw survival curves and calculate fluence to n log-reduction of a selection of spore-forming bacteria and fungi - Table 2 contains data extracted from the scientific literature and used to draw figure 4 comparing data obtained inthe study to data from other sources
DOI: 10.15454/ywetvm
title: CIRCASA DELIVERABLE D1.4: "International Knowledge Synthesis activities"

description: In order to understand soil’s contribution to ecosystem services, large-scale modelling and mapping soil properties and processes are needed. This increased global understanding will show how to tackle multiple land based challenges through agricultural SOC sequestration. This report is detailing the harmonized spatial data sets and their use to create knowledge synthesis on the potential for SOC sequestration in agriculture and on the role of SOC for agricultural productivity, climate change mitigation and adaptation.
DOI: 10.15454/zdodw2
title: Plot Climate Interpolated base

description: Climate data along an elevational gradient at Massif de Belledonne, France
DOI: 10.15454/y1narb
title: RPG complété 2019 département 12

description: RPG complété 2019. Complète le RPG campagne 2019 pour le département 12. (contient les parcelles agricoles hors RPG) Données géographiques (vectorielles, shapefile), parcellaires. Sources : IGN, OSO/Cesbio. Traitements : INRAE US ODR, 2021
DOI: 10.15454/yjnzvz
title: PHA production from fruit pulp waste

description: This file contains detailed description of the PHA production assays performed by Ibet from M3 to M18.
DOI: 10.15454/yibw7x
title: Dataset SYNERGY

description: Agricultural specialization is linked with negative environmental impact. The SYNERGY bio-economic model studies promising levers to limit these impacts: expand of legumes production and exchanges of crops and manure between farms. SYNERGY is a regional model that includes specialized farm types and models exchanges of crops (including legumes) and manure between them. To build this model, a large variety of data were collected. The aim of this paper is to present these data and specify their sources. The data implemented in SYNERGY were secondary data collected from a variety of sources or primary data generated thanks to different tools. It encompasses several domains (crop, livestock, feed, fertilization), and several scales, from national data (France), to local data (administrative regions). The data set presents three specific features. First, it includes data on feed costs that are differentiated according to their origin. Secondly, it includes detailed data on legumes, from their production to their use in feed. Thirdly, it includes data to calculate two environmental indicators on nitrogen efficiency and nitrogen losses. Thus, the data set of the SYNERGY model represents a valuable collection of agronomic, economic and environmental data to develop further research on the production of legumes, the different feeding strategies and their related environmental and economic impacts of agroecosystems.
DOI: 10.15454/ywmmh4
title: Absolute quantitation of microbes using 16S rRNA gene metabarcoding: a rapid normalization of relative abundances by quantitative PCR targeting a 16S rRNA gene spike-in standard

description: Metabarcoding of the 16S rRNA gene is commonly used to characterize microbial communities, by estimating the relative abundance of microbes. Here we present a method to retrieve the concentrations of the 16S rRNA gene per gram of any environmental sample using a synthetic standard in minuscule amounts (100 ppm to 1% of the 16S rRNA sequences) that is added to the sample before DNA extraction and quantified by 2 quantitative PCR (qPCR) reactions. This allows normalizing by the initial microbial density, taking into account the DNA recovery yield. We quantified the internal standard and the total load of 16S rRNA genes by qPCR. The qPCR for the latter uses the exact same primers as those used for Illumina sequencing of the V3-V4 hypervariable regions of the 16S rRNA gene to increase accuracy. We are able to calculate the absolute concentration of the species per gram of sample, taking into account the DNA recovery yield. This is crucial for an accurate estimate as the yield varied between 40 and 84%. This method avoids sacrificing a high proportion of the sequencing effort to quantify the internal standard. If sacrificing a part of the sequencing effort to the internal standard is acceptable, we however recommend that the internal standard accounts for 30% of the environmental 16S rRNA genes to avoid the PCR bias associated with rare phylotypes. The method proposed here was tested on a feces sample but can be applied more broadly on any environmental sample. This method offers a real improvement of metabarcoding of microbial communities since it makes the method quantitative with limited efforts.