{"doi":"10.1128/mra.00127-20","title":"Metagenome-Assembled Genome Sequences of Three Uncultured\n            <i>Planktomarina</i>\n            sp. Strains from the Northeast Atlantic Ocean","abstract":"We report three metagenome-assembled genomes (MAGs) of <i>Planktomarina</i> strains from coastal seawater (Portugal) to help illuminate the functions of understudied <i>Rhodobacteraceae</i> bacteria in marine environments. The MAGs encode proteins involved in aerobic anoxygenic photosynthesis and a versatile carbohydrate metabolism, strengthening the role of <i>Planktomarina</i> species in oceanic carbon cycling.","journal":"Microbiology Resource Announcements","year":2020,"id":3293,"datarank":0.4557415549438123,"base_score":2.0794415416798357,"endowment":2.0794415416798357,"self_citation_contribution":0.31191623125197543,"citation_network_contribution":0.14382532369183684,"self_endowment_contribution":0.31191623125197543,"citer_contribution":0.14382532369183684,"corpus_percentile":50.854353132628155,"corpus_rank":605,"citation_count":7,"citer_count":7,"citers_with_citation_signal":6,"citers_with_endowment":6,"datacite_reuse_total":0,"is_dataset":true,"is_dataset_confidence":0.9148,"is_oa":true,"file_count":0,"downloads":22,"has_version_chain":false,"published_date":"2020-03-19","fair_score":55.0,"fair_percentile":80.29903254177661,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":35328,"name":"Nuno Borges","orcid":"0000-0002-3277-8517","position":1,"is_corresponding":false},{"id":35329,"name":"Sandra Godinho Silva","orcid":"0000-0002-4763-0662","position":2,"is_corresponding":false},{"id":28499,"name":"Ulisses Nunes da Rocha","orcid":"0000-0001-6972-6692","position":3,"is_corresponding":false},{"id":35330,"name":"Asunción Lago-Lestón","orcid":null,"position":4,"is_corresponding":false},{"id":35331,"name":"Tina Keller-Costa","orcid":null,"position":5,"is_corresponding":false},{"id":35332,"name":"Rodrigo Costa","orcid":"0000-0002-5932-4101","position":6,"is_corresponding":false},{"id":35333,"name":"Asunción Lago‐Lestón","orcid":"0000-0003-4361-7732","position":7,"is_corresponding":false},{"id":35334,"name":"Tina Keller‐Costa","orcid":"0000-0003-3702-9192","position":8,"is_corresponding":false},{"id":35327,"name":"Matilde Marques","orcid":"0000-0001-9443-0893","position":0,"is_corresponding":true}],"reference_count":19,"raw_metadata":null,"created_at":"2026-03-01T18:20:47.508186Z","pmid":"32193237","pmcid":"PMC7082456","fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":"diamond","license":"cc-by","views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":65.0,"fair_a":80.0,"fair_i":25.0,"fair_r":50.0,"fair_zscore":0.8854,"fair_rationale":{"fair_score":55.0,"has_llm":true,"dimensions":{"F":{"name":"Findable","score":65.0,"criteria":[{"key":"f_has_doi","label":"Has a persistent DOI","kind":"deterministic","weight":1.0,"fraction":1.0,"signal":"DOI present","rationale":null},{"key":"f_repository_presence","label":"Indexed in repositories / literature DBs","kind":"deterministic","weight":1.0,"fraction":1.0,"signal":"datacite=0, pmcid=True, pmid=True","rationale":null},{"key":"f_persistent_ids","label":"Resolvable scholarly identifiers (OpenAlex)","kind":"deterministic","weight":0.5,"fraction":0.0,"signal":"no OpenAlex id","rationale":null},{"key":"f_metadata_richness","label":"Rich, machine-readable metadata","kind":"llm","weight":1.0,"fraction":0.5,"signal":null,"rationale":"The paper provides accession numbers and basic metadata (e.g., completeness, contamination, GC content) in a table, but no machine-readable structured metadata (e.g., schema.org JSON-LD) is present in the text."}]},"A":{"name":"Accessible","score":80.0,"criteria":[{"key":"a_open_access","label":"Open Access / files deposited","kind":"deterministic","weight":1.5,"fraction":1.0,"signal":"Open Access","rationale":null},{"key":"a_retrievable","label":"Free full text retrievable","kind":"deterministic","weight":1.0,"fraction":0.0,"signal":"0 OA location(s)","rationale":null},{"key":"a_access_protocol","label":"Clear data/code access protocol","kind":"llm","weight":1.0,"fraction":1.0,"signal":null,"rationale":"The 'Data availability' section clearly states deposition of MAGs and raw metagenomes in ENA/EMBL/GenBank under accession PRJEB13222, with specific BioSample and GenBank accessions, providing a complete access protocol."}]},"I":{"name":"Interoperable","score":25.0,"criteria":[{"key":"i_linked_data","label":"Linked datasets / DataCite relations","kind":"deterministic","weight":1.0,"fraction":0.0,"signal":"linked_datasets=0, datacite=0","rationale":null},{"key":"i_standard_ids","label":"References data via standard accessions","kind":"deterministic","weight":1.0,"fraction":0.0,"signal":"accessions=0, trials=0","rationale":null},{"key":"i_standards","label":"Standard formats, vocabularies & identifiers","kind":"llm","weight":1.0,"fraction":0.5,"signal":null,"rationale":"Standard file formats (e.g., FASTQ, FASTA) are implied but not stated; standard identifiers (e.g., INSDC accessions) are used, but no mention of standard vocabularies or data formats for interoperability."}]},"R":{"name":"Reusable","score":50.0,"criteria":[{"key":"r_license","label":"Clear, open reuse license","kind":"deterministic","weight":1.5,"fraction":0.0,"signal":"no license","rationale":null},{"key":"r_downloads","label":"Demonstrated reuse (downloads)","kind":"deterministic","weight":0.5,"fraction":1.0,"signal":"downloads=22","rationale":null},{"key":"r_version","label":"Versioned / maintained","kind":"deterministic","weight":0.5,"fraction":0.0,"signal":"no version chain","rationale":null},{"key":"r_dataset","label":"Classified as a data resource","kind":"deterministic","weight":0.5,"fraction":1.0,"signal":"is_dataset","rationale":null},{"key":"r_reusability","label":"Data-availability statement, license & reproducibility","kind":"llm","weight":2.0,"fraction":0.667,"signal":null,"rationale":"The paper includes a data-availability statement with accessions, is published under CC-BY 4.0 license (stated), and provides sufficient methodological detail for reproducibility, but lacks a formal software or data citation and explicit reuse conditions beyond the license."}]}},"suggestions":["Include machine-readable metadata (e.g., as JSON-LD or RDF) in the HTML version of the paper to enhance findability.","Explicitly state the file formats used for the genomes (e.g., FASTA, GenBank flat file) and the software versions employed.","Provide a formal data citation for the genome assemblies to improve credit and traceability.","Add a 'Reuse license' section clearly stating the license for the data (e.g., Creative Commons Zero for data).","Describe the directory structure or any standardized naming conventions used in the deposited data."],"model":"deepseek/deepseek-v4-flash","agent_version":"fair_agent_v2","fulltext_source":"epmc_xml"},"fair_model":"deepseek/deepseek-v4-flash","fair_agent_version":"fair_agent_v2","fair_fulltext_source":"epmc_xml","fair_has_llm":true,"fair_computed_at":"2026-06-18T00:51:47.357034Z","clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}