{"doi":"10.1128/mra.00545-21","title":"Genome Assemblies across the Diverse Evolutionary Spectrum of <i>Leishmania</i> Protozoan Parasites","abstract":"We report the high-quality draft assemblies and gene annotations for 13 species and/or strains of the protozoan parasite genera Leishmania , Endotrypanum , and Crithidia , which span the phylogenetic diversity of the subfamily Leishmaniinae within the kinetoplastid order of the phylum Euglenazoa. These resources will support studies on the origins of parasitism.","journal":"Microbiology Resource Announcements","year":2021,"id":182223,"datarank":0.6304747676075609,"base_score":2.772588722239781,"endowment":2.772588722239781,"self_citation_contribution":0.41588830833596724,"citation_network_contribution":0.2145864592715937,"self_endowment_contribution":0.41588830833596724,"citer_contribution":0.2145864592715937,"corpus_percentile":68.63154637580259,"corpus_rank":4056,"citation_count":15,"citer_count":12,"citers_with_citation_signal":9,"citers_with_endowment":9,"datacite_reuse_total":0,"is_dataset":true,"is_dataset_confidence":0.93,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2021-01-01","fair_score":58.3333,"fair_percentile":72.8829104249465,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":734518,"name":"Natalia S. Akopyants","orcid":null,"position":1,"is_corresponding":false},{"id":734065,"name":"Deborah E. Dobson","orcid":"0000-0002-9563-1299","position":2,"is_corresponding":false},{"id":94763,"name":"Christiane Hertz‐Fowler","orcid":"0000-0002-0729-6479","position":3,"is_corresponding":false},{"id":689509,"name":"Lon‐Fye Lye","orcid":"0000-0003-0704-3532","position":4,"is_corresponding":false},{"id":411893,"name":"Peter J. Myler","orcid":"0000-0002-0056-0513","position":5,"is_corresponding":false},{"id":734066,"name":"Gowthaman Ramasamy","orcid":"0000-0002-9169-3265","position":6,"is_corresponding":false},{"id":615762,"name":"Achchuthan Shanmugasundram","orcid":"0000-0003-2349-6929","position":7,"is_corresponding":false},{"id":734067,"name":"Fátima Silva-Franco","orcid":"0000-0002-2900-027X","position":8,"is_corresponding":false},{"id":734068,"name":"Sascha Steinbiss","orcid":"0000-0002-2151-0574","position":9,"is_corresponding":false},{"id":24554,"name":"Chad Tomlinson","orcid":"0000-0001-9905-6159","position":10,"is_corresponding":false},{"id":1280,"name":"Richard K. Wilson","orcid":"0000-0002-1992-1358","position":11,"is_corresponding":false},{"id":689512,"name":"Stephen M. Beverley","orcid":"0000-0001-5319-0811","position":12,"is_corresponding":false},{"id":29181,"name":"Wesley C. Warren","orcid":"0000-0003-2255-2730","position":0,"is_corresponding":true}],"reference_count":13,"raw_metadata":null,"created_at":"2026-07-18T23:48:09.223560Z","pmid":"34472979","pmcid":"PMC8411921","fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":94.4444,"fair_a":62.5,"fair_i":0.0,"fair_r":25.0,"fair_zscore":0.9454,"fair_rationale":{"fair_score":58.33,"has_llm":true,"taxonomy_version":"fair_taxonomy_v5","dimensions":{"F":{"name":"Findable","score":94.44,"criteria":[{"key":"f_dataset_pid","label":"Persistent identifier for the data","kind":"llm","weight":2.0,"fraction":1.0,"verdict":"yes","evidence":"The assemblies have been deposited in the NCBI GenBank repository under the BioProject accession numbers in Table 1 , including links to the primary data and annotations ( PRJNA50303 , PRJNA50301 , PRJNA192717 , PRJNA192712 , PRJNA192710 , PRJNA169676 , PRJNA169673 , PRJNA165955 , PRJNA165959 , PRJNA192711 , PRJNA192703 , PRJNA165953 , and PRJNA165885 ).","grounded":true,"rationale":"The paper provides BioProject accession numbers (PRJNA...), which are persistent identifiers in a repository accession scheme recognised by the criteria. 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Funding to C.H.-F. from Wellcome Trust grants WT099198MA and WT108443MA provided support for F.S.-F., A.S., and S.S.","grounded":true,"rationale":"The paper provides specific grant numbers (AI29646, HG00307907, AI103858, WT099198MA, WT108443MA) attached to named funders (NIH, Wellcome Trust).","anchors":["DataCite Metadata Schema 4.6 — 'FundingReference' property (funderName, funderIdentifier, award","Crossref Funder Registry — canonical funder identifiers for funding metadata","RDA-F2-01M — rich metadata provided to allow discovery (funding is part of the descriptive reco"],"scored":true,"signal":null}]}},"actions":[{"key":"r_reuse_license","dimension":"R","label":"Reuse licence","action":"Attach a standard, machine-readable open licence to the deposit — CC0 or CC BY, which is what Horizon Europe and most funders expect — and print the licence identifier in the paper. 'Free to use' is not a licence: it grants nothing a reuser's institution can rely on.","anchors":["yes","partial","no"],"verdict":"no","current":0.0,"evidence":null,"why":"The paper does not state any license for the data; the CC BY license applies to the article, not the data itself.","gain":16.67,"priority":"essential","scored":true},{"key":"i_open_nonproprietary_format","dimension":"I","label":"Open file format","action":"Release the data in an open, community-standard format (CSV/TSV, JSON, HDF5, NetCDF, FASTQ, VCF, NIfTI…) instead of — or alongside — any proprietary or instrument-native format, and name the format in the paper. A dataset that needs a €2,000 licence to open is not reusable. 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NIH DMS Element 4 asks for both; most papers give neither.","anchors":["yes","partial","no"],"verdict":"no","current":0.0,"evidence":null,"why":"The paper does not state any retention period, indefinite archival claim, or repository preservation guarantee; it only says the data are deposited, not how long they will persist.","gain":0.0,"priority":"useful","scored":false}],"suggestions":["Attach a standard, machine-readable open licence to the deposit — CC0 or CC BY, which is what Horizon Europe and most funders expect — and print the licence identifier in the paper. 'Free to use' is not a licence: it grants nothing a reuser's institution can rely on.","Release the data in an open, community-standard format (CSV/TSV, JSON, HDF5, NetCDF, FASTQ, VCF, NIfTI…) instead of — or alongside — any proprietary or instrument-native format, and name the format in the paper. A dataset that needs a €2,000 licence to open is not reusable. Prefer open genomics / sequencing formats such as FASTQ, BAM or VCF.","Publish the analysis code in a public forge, archive a tagged release with a DOI (Zenodo/Software Heritage), and cite that DOI in the paper. NIH DMS Element 2 asks for the tools and code, not only the data — and 'available on request' is not a locator. Archive the analysis code in a versioned repository (GitHub + a Zenodo release DOI).","Cite the dataset in the reference list like a publication — creator, year, title, repository, DOI/accession — and cite it in-text where it is used. Only a reference- list entry is machine-readable to Crossref/DataCite, and only a citation lets the data earn credit. Cite the genomics / sequencing repository accession (e.g. from GEO (GSE accession), SRA (SRP/SRR) or ENA/BioProject (PRJEB/PRJNA)) in the reference list.","Version the deposit and cite the exact version analysed (a version-specific DOI, or an accession with its version suffix). A reader reproducing your work against 'the current release' is reproducing it against a different dataset."],"model":"deepseek/deepseek-v4-flash","agent_version":"fair_agent_v8","fulltext_source":"epmc_xml"},"fair_model":"deepseek/deepseek-v4-flash","fair_agent_version":"fair_agent_v8","fair_fulltext_source":"epmc_xml","fair_has_llm":true,"fair_computed_at":"2026-07-20T12:06:59.659562Z","clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}