MicroBent_Data Management Plan

1 MicroBent: Microbial activity at the Bentonite barrier in a deep geological nuclear waste repository Data Management Plan Project Name Microbial activity at the Bentonite barrier in a deep geological nuclear waste repository Project Acronym (number) MicroBent (101060228) Funding European Commission HORIZONMSCA-2021-PF-01 Coordinator Margarita López-Fernández Beneficiary University of Granada, Spain Deliverable Number D1.1 Deliverable Title Data Management Plan Issue Date 05/09/2023 Status Submitted Dissemination level Public Contact [email protected] Version 1.0 Version Modifications Date Author 1.0 Initial document 05/09/2023 Margarita López-Fernández 2 MicroBent - Data Management Plan 1. DATA SUMMARY 1.1. Introduction and purpose This is the initial Data Management Plan (DMP) for the project MicroBent (101060228), funded by the European Commission through the Marie Skłodowska-Curie Actions (MSCA) as part of the Postdoctoral Fellowships 2021 (HORIZON-MSCA-2021PF-01). The coordinator of this DMP, who is also the experienced researcher associated to the funded fellowship, is Dr. Margarita López-Fernández from the Department of Microbiology at the University of Granada (UGR), Spain (the beneficiary institution). The purpose of this DMP is to provide a detailed description of the procedures and protocols for the management of the datasets generated during the lifetime of the project. This DMP will describe the main data management principles in terms of data standards and metadata, sharing, archiving, preservation, and security. This is an alive document that will be updated at regular intervals during the lifetime of the project and be allocated in the institutional repository of the UGR (DIGIBUG) under the name of MicroBent_DMP_V1.0.pdf 1.2. Relevance to project targets MicroBent will generate several datasets of different types both quantitative and qualitative. The data management will serve to support the project scientific objectives and spread the project results. This includes the management of three main data categories: 1Research and Innovation objectives. The datasets associated to this category will allow any potential user to replicate the main scientific results of the project. 2Dissemination activities for expert audiences. The datasets associated to this category will give access to any potential user to the documents summarizing the main scientific results of the project. This includes preprints, technical reports (e.g. protocols), and conference presentations. 3Communication activities for non-experts audiences. The datasets associated to this category will give access to any potential user to the documents dedicated to educational purposes. This includes presentations used in events for distinct non-expert audiences and teaching material for undergraduate and graduated students. 2. DATA SET DESCRIPTIONS MicroBent aims to investigate the indigenous microorganisms under in situ repository conditions, to ensure the safety of Deep Geological Repositories (DGRs) of nuclear waste. To this purpose, MicroBent proposes a multidisciplinary approach, including geology, chemistry and molecular biology to describe microbial populations and metabolisms in a repository system, and directly applied to the storage of highly 3 radioactive waste. Apart from the research and innovation objectives, MicroBent will generate data to disseminate its results between different expert audiences and data for educational purposes. MicroBent will generate data with different formats that will be accessible using free softwares. The different formats are presented in the table below: Data Type Description Format Raw numerical data Experimental data dat Raw sequences data Experimental data fastq Images Scientific and educational purposes JPEG, TIFF, PDF Reports Scientific, technical, and educational purposes PDF Paper preprints Green open access according to HORIZON EUROPE guidelines PDF Presentations Scientific and educational purposes PDF/ mp4 Compressed data Data storage TAR.GZ MicroBent will create data from three distinct origins: experimental, paper preprints, and presentations (technical and pedagogical). The following tables summarize the different dataset types that will be generated by MicroBent linked to its respective work package. The total estimated amount of data is around 11GB, with datasets ranging from 10MB to 5000MB. Work Package 1. Management Dataset type Origin Format Quantity Data Management Plan (DMP) Report PDF < 10 MB Coordination & Evaluation seminars Presentation PDF < 300 MB REA reports Report PDF < 10 MB WP2: Training Dataset type Origin Format Quantity Career Development Plan (CDP) Report PDF < 10 MB Participation in training courses, seminars, and workshops Presentation PDF < 300 MB WP3: Bentonite preparation, geochemical and mineralogical characterization Dataset type Origin Format Quantity X-Ray Diffraction (XRD) measurements Experimental PDF < 100 MB HAADF-STEM images Experimental JPEG, TIFF, PDF < 500 MB HRTEM-EDX images Experimental PEG, TIFF, PDF < 500 MB ICP-MS measurements Experimental PDF < 100 MB X-Ray Fluorescence (XRF) measurements Experimental PDF < 100 MB 4 WP4: Microbial diversity Dataset type Origin Format Quantity DNA measurements Experimental PDF < 100 MB DNA images Experimental JPEG, TIFF, PDF < 500 MB Sequencing data Experimental fastq < 1000 MB WP5: Microbial activity Dataset type Origin Format Quantity RNA measurements Experimental PDF < 100 MB RNA images Experimental JPEG, TIFF, PDF < 500 MB Sequencing data Experimental fastq < 5000 MB WP6: WP6: Dissemination, Exploitation and Communication Outreach activities Dataset type Origin Format Quantity Dissemination, Exploitation, Communication and Outreach activities Plan Report PDF < 10 MB Conference presentations and posters Experimental JPEG, TIFF, PDF < 500 MB Manuscripts Paper preprint PDF < 500 MB Teaching material Presentation PDF < 300 MB Outreach activities Presentation PDF < 300 MB Press releases, website posts and social networking Reports/presentations PDF/ TIFF < 300 MB 3. FAIR DATA 3.1. Making data Findable To make data accessible, visible, and re-usable, the metadata system used for the description of the materials hosted in the UGR repository (DIGIBUG), is Dublin Core Qualified. This is a metadata initiative adopted by the European repository OpenAIRE. DIGIBUG assigns a unique identifier (handle) to each document and/or dataset, which allows the identification and citation of electronic documents. Each dataset generated by MicroBent will be recorded by a dataset identifier in the general file MicroBent_Metadata_List.pdf, which will be hosted (and regularly updated) in DIGIBUG. The information of each individual dataset will be included in a linked metadata file and will contain the information appearing in the table below. Contents of a generic metadata file associated to a given dataset Data identifier The ID will result from the naming convention provided in the next table Dataset title The title of the dataset, which will be easily searchable and findable 5 Responsible partner Partner institution responsible for the creation of the dataset Work package Project work package Dataset description A brief description of the dataset Dataset benefit What are the benefits of the dataset Dataset dissemination Where will the dataset be disseminated Format type See table with formats in section 2 Expected size Dataset size (see work package tables in section 2) Source How was the dataset generated Repository DIGIBUG (arXiv also for final preprints, see section 4) DOI (if known) The DOI will be entered once the dataset has been deposited Date of Submission The date of submission will be added once the dataset has been uploaded to the repository Keywords Keywords associated with the dataset Version Number Version number to keep track of changes The dataset identifier (first field in the previous table) will be created according to the convention presented in the table below. The corresponding metadata file will be named by adding META at the end of the identifier of its linked dataset file. All the metadata files will have extension .dat. Convention for creating the dataset identifier Components Example Project name MicroBent (always) Two digits chronological number (corresponding to the appearance order in MicroBent_Metadata_List.pdf) 01 Title of the dataset DNA_sequences Version of the dataset (DIGIBUG keeps several versions) V1.0 Work Package associated to the dataset WP1 WP1 Format of the dataset TAR.GZ Example dataset file identifier: MicroBent_01_ DNA_sequences _V1.0_WP1.TAR.GZ Example metadata file identifier: MicroBent _01_ DNA_sequences _V1.0_WP1_META.dat 3.2. Making data openly accessible The data hosted in the institutional repository DIGIBUG will be accessible to the complete research community. To this respect, the data generated by MicroBent does not entail Intellectual Property (IP) rights such as patents, trademarks, or copyrights. The agreement, supervised by UGR’s Research Results Transfer Office, between the beneficiary institution (UGR) and the DMP coordinator complies with the IP-MSCA rules for access rights (royalty-free basis) and results ownership. The data generated will be accessible through the DIGIBUG website and will be open to any user without restrictions. 6 The table below provides examples of software packages to open and/or use the data generated by MicroBent for different operating systems (Windows and MacOS) and for all the formats. These examples are not unique, and the potential user might use other standard packages and/or platforms. Format Examples of software (operating system) to open/use them TAR.GZ 7-Zip (Windows), tar utility (MacOS) dat Notepad (Windows), GNU emacs (MacOS) PDF Adobe Reader (Windows), Preview (MacOS) JPEG, PNG, TIFF Adobe Illustrator (Windows), Preview (MacOS) mp4 VLC (Windows), MPlayerX (MacOS) 3.3. Making data interoperable MicroBent aims to collect and document all the data generated in a standardized way (Dublin Core Qualified) to ensure that all datasets, which will be accompanied by the corresponding metadata file, can be interpreted and shared. Therefore, a metadata file will be created and linked to each dataset. These metadata files will include all the information detailed in the first table of section 3.1 (Contents of a generic Metadata file associated to a given Dataset). 3.4. Increase data re-use The datasets will be made available for their re-use and be stored in DIGIBUG without any cost. If datasets are updated, the coordinator of this DMP will be responsible for managing the different data versions, making sure that the latest version is available. The policies adopted by DIGIBUG concerning licenses, availability periods, and quality are: 1. License: All materials published in the DIGIBUG repository incorporate different licenses of the nonprofit organization Creative Commons, in particular, the Creative Commons 4.0 version of the Non-Commercial-ShareAlike CC BY-NC-SA license, which is the one recommended by OpenAIRE. This license allows the reuse of data at the end of the project and the use by third parties. 2. Availability: The data will remain reusable after the end of the project with no time limitations nor access restrictions, unless embargo or access restrictions are eventually indicated. 3. Quality: The quality of the datasets is guaranteed by the DIGIBUG operating software, which performs routine backups and checking of the material hosted. 4. RESOURCES ALLOCATION All the datasets generated by MicroBent will be allocated in DIGIBUG without costs (neither in the short nor in the long term), time limitation, or access restrictions. In addition, another version of the produced preprints will be uploaded on the arXiv (a private not-for-profit educational repository owned and operated by Cornell University). The same preprint title as the one used for the version allocated in DIGIBUG will be used 7 for the arXiv version. With this we will ensure and enhance green open access according to the Horizon Europe guidelines. Dr. Margarita López-Fernández, from the Department of Microbiology at the UGR (Spain), will be responsible for the data management within MicroBent project, and for creating a DMP and its subsequent updates, plus recording and updating the generated datasets. 5. DATA SECURITY The Scientific Documentation Service of the UGR, located in the Library of the Hospital Real (Granada, Spain), coordinates the electronic management of the DIGIBUG repository. DIGIBUG incorporates a program for backup and preservation. Therefore, MicroBent datasets hosted in DIGIBUG will receive the same security treatment as the rest of the documents in this repository. All the responsibilities concerning data recovery and secure storage will go to the Scientific Documentation Service of the UGR, which oversees the storing of the datasets hosted in DIGIBUG. 6. ETHICAL ASPECTS As stated in the Ethics Issues of the HORIZON-MSCA-2021-PF-01 grant agreement (101060228), there is no requirement for ethical review since MicroBent does not involve the use of human participants, human cells or tissues, personal data collection and/or processing, animals, potential for misuse of research results, or elements that may cause harm to the environment, animals or plants.