{ "type": "genome", "identifier": "GCF_001468025.1", "organism": "Legionella shakespearei DSM 23087", "title": "Legionella shakespearei DSM 23087", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Tel Aviv University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001468025.1", "bioproject": "PRJNA224116", "biosample": "SAMN04274794", "wgs_master": "LNYW00000000.1", "refseq_category": "reference genome", "taxid": "1122169", "species_taxid": "45075", "organism_name": "Legionella shakespearei DSM 23087", "infraspecific_name": "strain=ATCC 49655", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2015/12/15", "asm_name": "ASM146802v1", "asm_submitter": "Tel Aviv University", "gbrs_paired_asm": "GCA_001468025.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/468/025/GCF_001468025.1_ASM146802v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3507052", "genome_size_ungapped": "3495892", "gc_percent": "41.500000", "replicon_count": "0", "scaffold_count": "76", "contig_count": "76", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_001468025.1-RS_2024_03_21", "annotation_date": "2024-03-21", "total_gene_count": "2974", "protein_coding_gene_count": "2905", "non_coding_gene_count": "49", "pubmed_id": "26752266" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2015-12-15", "dateModified": "2015-12-15", "datePublished": "2015-12-15", "_annotation": { "sample_count": 1, "sample_organism": [ "Legionella shakespearei DSM 23087" ], "sample_taxid": [ "1122169" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "United Kingdom: Stratford-upon-Avon" ], "sample_host_location_id": [], "data_size": "0.994 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "3507052", "Number of Sequences": "76", "Longest Sequences (bp)": "313212", "N50 (bp)": "135955", "Gap Ratio (%)": "0.318216", "GCcontent (%)": "41.7", "Number of CDSs": "2906", "Average Protein Length": "339.7", "Coding Ratio (%)": "84.5", "Number of rRNAs": "3", "Number of tRNAs": "40", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Legionella shakespearei", "strain": "strain=ATCC 49655", "accession": "GCA_001468025.1", "taxid": 45075, "species_taxid": 45075, "relation_to_type": "type", "validated": true, "ani": 100.0, 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"ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella quateirensis", "strain": "strain=ATCC 49507", "accession": "GCA_001467955.1", "taxid": 45072, "species_taxid": 45072, "relation_to_type": "type", "validated": true, "ani": 78.7152, "matched_fragments": 316, "total_fragments": 1136, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella steelei", "strain": "strain=IMVS3376", "accession": "GCA_001468005.1", "taxid": 947033, "species_taxid": 947033, "relation_to_type": "type", "validated": true, "ani": 78.582, "matched_fragments": 187, "total_fragments": 1136, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella moravica", "strain": "strain=DSM 19234", "accession": "GCA_000423305.1", "taxid": 39962, "species_taxid": 39962, "relation_to_type": "type", "validated": true, "ani": 78.496, "matched_fragments": 272, "total_fragments": 1136, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella nautarum", "strain": "strain=1224", "accession": "GCA_900639935.1", "taxid": 45070, "species_taxid": 45070, "relation_to_type": "type", "validated": true, "ani": 78.4721, "matched_fragments": 89, "total_fragments": 1136, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella anisa", "strain": "strain=FDAARGOS_1480", "accession": "GCA_019930885.1", "taxid": 28082, "species_taxid": 28082, "relation_to_type": "type", "validated": true, "ani": 78.3185, "matched_fragments": 183, "total_fragments": 1136, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella drancourtii", "strain": "strain=LLAP12", "accession": "GCA_000162755.2", "taxid": 168933, "species_taxid": 168933, "relation_to_type": "type", "validated": true, "ani": 78.2524, "matched_fragments": 190, "total_fragments": 1136, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella anisa", "strain": "strain=WA-316-C3", "accession": "GCA_001467525.1", "taxid": 28082, "species_taxid": 28082, "relation_to_type": "type", "validated": true, "ani": 78.1525, "matched_fragments": 183, "total_fragments": 1136, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella saoudiensis", "strain": "strain=LS-1", "accession": "GCA_001465875.1", "taxid": 1750561, "species_taxid": 1750561, "relation_to_type": "type", "validated": true, "ani": 78.0919, "matched_fragments": 169, "total_fragments": 1136, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella fallonii", "strain": "strain=LLAP-10", "accession": "GCA_000953135.1", "taxid": 96230, "species_taxid": 96230, "relation_to_type": "type", "validated": true, "ani": 78.0875, "matched_fragments": 216, "total_fragments": 1136, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella anisa", "strain": "strain=WA-316-C3", "accession": "GCA_900639785.1", "taxid": 28082, "species_taxid": 28082, "relation_to_type": "type", "validated": true, "ani": 78.0126, "matched_fragments": 186, "total_fragments": 1136, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella pneumophila", "strain": "strain=NCTC11192", "accession": "GCA_900452735.1", "taxid": 446, "species_taxid": 446, "relation_to_type": "type", "validated": true, "ani": 77.679, "matched_fragments": 199, "total_fragments": 1136, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000373765.1", "gtdb_species": "s__Legionella shakespearei", "ani": 99.9481, "matched_fragments": 1104, "total_fragments": 1136, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Legionellales;f__Legionellaceae;g__Legionella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.95", "min_intra_species_ani": "99.95", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCF_001467945.1", "gtdb_species": "s__Legionella parisiensis", "ani": 79.1687, "matched_fragments": 175, "total_fragments": 1136, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Legionellales;f__Legionellaceae;g__Legionella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.98", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_016786215.1", "gtdb_species": "s__Legionella sp016786215", "ani": 79.1453, "matched_fragments": 305, "total_fragments": 1136, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Legionellales;f__Legionellaceae;g__Legionella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.95", "min_intra_species_ani": "99.94", "mean_intra_species_af": "0.97", "min_intra_species_af": 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