{ "access": { "embargo": { "active": false, "reason": null }, "files": "public", "record": "public", "status": "open" }, "created": "2021-08-27T09:18:37.408463+00:00", "custom_fields": {}, "deletion_status": { "is_deleted": false, "status": "P" }, "files": { "count": 7, "enabled": true, "entries": { "Projects-Deliverable-PhD-3.2.pdf": { "checksum": "md5:4a13a738520e50116f2f7c84ba4c31b6", "ext": "pdf", "id": "b245f5f0-7d8c-4fdf-8395-fb457d7896c4", "key": "Projects-Deliverable-PhD-3.2.pdf", "metadata": null, "mimetype": "application/pdf", "size": 505505 }, "Projects-Deliverable-PhD-4.2.pdf": { "checksum": "md5:c329ec1c839a4dc2ae0027cdeb801961", "ext": "pdf", "id": "f358ab98-b6a4-4b72-8441-e4f83ec19c70", "key": "Projects-Deliverable-PhD-4.2.pdf", "metadata": null, "mimetype": "application/pdf", "size": 363943 }, "Projects-Deliverable-PhD-4.3.pdf": { "checksum": "md5:5d2a4ad60e17bb1b78889feb82491633", "ext": "pdf", "id": "09427c3c-ec51-4c48-8e25-ac87d145f40f", "key": "Projects-Deliverable-PhD-4.3.pdf", "metadata": null, "mimetype": "application/pdf", "size": 704165 }, "Projects-Deliverable-PhD-4.4.pdf": { "checksum": "md5:676039b9c0fd6d78fe417891adc9140b", "ext": "pdf", "id": "54d8bb39-9467-4bde-b9ba-b4ab3a93b3a4", "key": "Projects-Deliverable-PhD-4.4.pdf", "metadata": null, "mimetype": "application/pdf", "size": 1431156 }, "Projects-Deliverable-PhD-4.5.pdf": { "checksum": "md5:d7517095ea694cce66b0e61fdcb64ac4", "ext": "pdf", "id": "0ef3d8c4-06b6-4213-b738-1e06977f6218", "key": "Projects-Deliverable-PhD-4.5.pdf", "metadata": null, "mimetype": "application/pdf", "size": 622742 }, "Projects-Deliverable-PhD-4.6.pdf": { "checksum": "md5:9bf78ca3ca341947badf18476bc64e91", "ext": "pdf", "id": "3ee49a2d-42bd-430f-b1a7-4bfbcfa21e78", "key": "Projects-Deliverable-PhD-4.6.pdf", "metadata": null, "mimetype": "application/pdf", "size": 693646 }, "Projects-Deliverable-PhD-4.7.pdf": { "checksum": "md5:a609e51413d6bfa583c360b118fa7889", "ext": "pdf", "id": "df874ed7-7200-49a3-9aeb-9b8be618df1a", "key": "Projects-Deliverable-PhD-4.7.pdf", "metadata": null, "mimetype": "application/pdf", "size": 490260 } }, "order": [], "total_bytes": 4811417 }, "id": "5284876", "is_draft": false, "is_published": true, "links": { "access": "https://zenodo.org/api/records/5284876/access", "access_links": "https://zenodo.org/api/records/5284876/access/links", "access_request": "https://zenodo.org/api/records/5284876/access/request", "access_users": "https://zenodo.org/api/records/5284876/access/users", "archive": "https://zenodo.org/api/records/5284876/files-archive", "archive_media": "https://zenodo.org/api/records/5284876/media-files-archive", "communities": "https://zenodo.org/api/records/5284876/communities", "communities-suggestions": "https://zenodo.org/api/records/5284876/communities-suggestions", "doi": "https://doi.org/10.5281/zenodo.5284876", "draft": "https://zenodo.org/api/records/5284876/draft", "files": "https://zenodo.org/api/records/5284876/files", "latest": "https://zenodo.org/api/records/5284876/versions/latest", "latest_html": "https://zenodo.org/records/5284876/latest", "media_files": "https://zenodo.org/api/records/5284876/media-files", "parent": "https://zenodo.org/api/records/5284875", "parent_doi": "https://zenodo.org/doi/10.5281/zenodo.5284875", "parent_html": "https://zenodo.org/records/5284875", "requests": "https://zenodo.org/api/records/5284876/requests", "reserve_doi": "https://zenodo.org/api/records/5284876/draft/pids/doi", "self": "https://zenodo.org/api/records/5284876", "self_doi": "https://zenodo.org/doi/10.5281/zenodo.5284876", "self_html": "https://zenodo.org/records/5284876", "self_iiif_manifest": "https://zenodo.org/api/iiif/record:5284876/manifest", "self_iiif_sequence": "https://zenodo.org/api/iiif/record:5284876/sequence/default", "versions": "https://zenodo.org/api/records/5284876/versions" }, "media_files": { "count": 0, "enabled": false, "entries": {}, "order": [], "total_bytes": 0 }, "metadata": { "creators": [ { "affiliations": [ { "name": "Institut Pasteur, Biodiversity and Epidemiology of Bacterial Pathogens, Paris, France" } ], "person_or_org": { "family_name": "Hennart Melanie", "identifiers": [ { "identifier": "0000-0002-1834-8246", "scheme": "orcid" } ], "name": "Hennart Melanie", "type": "personal" } }, { "affiliations": [ { "name": "Institut Pasteur, Biodiversity and Epidemiology of Bacterial Pathogens, Paris, France" } ], "person_or_org": { "family_name": "Brisse Sylvain", "identifiers": [ { "identifier": "0000-0002-2516-2108", "scheme": "orcid" } ], "name": "Brisse Sylvain", "type": "personal" } } ], "description": "
Background
\n\nOne of the main objectives of the PhD project is to develop a novel nomenclature system, potentially applicable to all bacterial pathogens. Here we first focus is on a highly antibiotic resistant bacterial pathogen, K. pneumoniae (Kp), and on a foodborne bacterial pathogen, Escherichia coli (Ec). The aim is to combine two main microbial strain nomenclatures approaches that are currently being used separately.
\n\n(further details: https://onehealthejp.eu/codes4strains/)
\n\nDeliverables
\n\nD-PhD16-3.2: cgLINcodes algorithm defined and implemented on full dataset
\n\nD-PhD16-4.2: Preprint publication on the cgLIN codes concept and comparison with multi-level single-linkage classifications
\n\nD-PhD16-4.3: A novel tool to define the population structure of species, called MSTclust
\n\nD-PhD16-4.4: An inheritance algorithm to provide backwards compatibility of MLSL groups with 7-gene MLST identifiers
\n\nD-PhD16-4.5: Comparison of the ANI metric with the cgMLST metric
\n\nD-PhD16-4.6: A novel method to identify recombination in cgMLST profiles
\n\nD-PhD16-4.7: Integration of MLSL identifiers into the BIGSdb platform to make them publicly available
\n\n", "funding": [ { "award": { "acronym": "One Health EJP", "id": "00k4n6c32::773830", "identifiers": [ { "identifier": "https://cordis.europa.eu/projects/773830", "scheme": "url" } ], "number": "773830", "program": "H2020", "title": { "en": "Promoting One Health in Europe through joint actions on foodborne zoonoses, antimicrobial resistance and emerging microbiological hazards." } }, "funder": { "id": "00k4n6c32", "name": "European Commission" } } ], "languages": [ { "id": "eng", "title": { "en": "English" } } ], "publication_date": "2021-08-27", "publisher": "Zenodo", "references": [ { "reference": "https://doi.org/10.1101/2021.07.26.453808" } ], "resource_type": { "id": "publication-deliverable", "title": { "de": "Projektergebnis", "en": "Project deliverable" } }, "rights": [ { "description": { "en": "The Creative Commons Attribution license allows re-distribution and re-use of a licensed work on the condition that the creator is appropriately credited." }, "icon": "cc-by-icon", "id": "cc-by-4.0", "props": { "scheme": "spdx", "url": "https://creativecommons.org/licenses/by/4.0/legalcode" }, "title": { "en": "Creative Commons Attribution 4.0 International" } } ], "subjects": [ { "subject": "Klebsiella pneumoniae" }, { "subject": "genomic classification" }, { "subject": "strain nomenclature" } ], "title": "Deliverables of Codes4strains project (Part2)", "version": "1" }, "parent": { "access": { "owned_by": { "user": 188436 } }, "communities": { "default": "f6c34403-f284-4a8b-851a-654ba557fc59", "entries": [ { "access": { "member_policy": "open", "members_visibility": "public", "record_policy": "open", "review_policy": "open", "visibility": "public" }, "children": { "allow": false }, "created": "2018-06-29T12:31:49.010610+00:00", "custom_fields": {}, "deletion_status": { "is_deleted": false, "status": "P" }, "id": "f6c34403-f284-4a8b-851a-654ba557fc59", "links": {}, "metadata": { "funding": [ { "award": { "id": "00k4n6c32::773830" }, "funder": { "id": "00k4n6c32" } } ], "page": "
The One Health European Joint Program (OHEJP) aims at integrating the complementary expertise of partners across Europe in order to prepare common action against infectious health threats. Those threats include zoonotic infections both in animals and humans, and infections or toxin contamination in feed and food. To reach the objective, the OHEJP consortium will develop a sustainable framework for an integrated community of research groups. Research groups are represented by reference laboratories in fields of human and veterinary medicine, food and environmental sciences. The OHEJP will emphasis on food-borne microbial infections and intoxications, in the scope of a One Health perspective.
", "title": "One Health EJP", "website": "https://onehealthejp.eu/" }, "revision_id": 3, "slug": "ohejp", "updated": "2023-11-15T15:30:49.246994+00:00" } ], "ids": [ "f6c34403-f284-4a8b-851a-654ba557fc59" ] }, "id": "5284875", "pids": { "doi": { "client": "datacite", "identifier": "10.5281/zenodo.5284875", "provider": "datacite" } } }, "pids": { "doi": { "client": "datacite", "identifier": "10.5281/zenodo.5284876", "provider": "datacite" }, "oai": { "identifier": "oai:zenodo.org:5284876", "provider": "oai" } }, "revision_id": 3, "stats": { "all_versions": { "data_volume": 79206054.0, "downloads": 121, "unique_downloads": 84, "unique_views": 79, "views": 89 }, "this_version": { "data_volume": 79206054.0, "downloads": 121, "unique_downloads": 84, "unique_views": 79, "views": 89 } }, "status": "published", "updated": "2021-08-28T01:48:43.447610+00:00", "versions": { "index": 1, "is_latest": true } }