{ "type": "genome", "identifier": "GCF_000162755.2", "organism": "Legionella drancourtii LLAP12", "title": "Legionella drancourtii LLAP12", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Unite de Recherche sur les Maladies Infectieuses et Tropicales Emergentes CNRS-IRD UMR 6236, Marcel, France", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000162755.2", "bioproject": "PRJNA224116", "biosample": "SAMN02471332", "wgs_master": "ACUL00000000.2", "refseq_category": "reference genome", "taxid": "658187", "species_taxid": "168933", "organism_name": "Legionella drancourtii LLAP12", "infraspecific_name": "strain=LLAP12", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2011/12/15", "asm_name": "ASM16275v2", "asm_submitter": "Unite de Recherche sur les Maladies Infectieuses et Tropicales Emergentes CNRS-IRD UMR 6236, Marcel, France", "gbrs_paired_asm": "GCA_000162755.2", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/162/755/GCF_000162755.2_ASM16275v2", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4152613", "genome_size_ungapped": "4070090", "gc_percent": "39.000000", "replicon_count": "0", "scaffold_count": "58", "contig_count": "213", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000162755.2-RS_2024_12_09", "annotation_date": "2024-12-09", "total_gene_count": "3725", "protein_coding_gene_count": "3533", "non_coding_gene_count": "41", "pubmed_id": "22047552" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2011-12-15", "dateModified": "2011-12-15", "datePublished": "2011-12-15", "_annotation": { "sample_count": 1, "sample_organism": [ "Legionella drancourtii LLAP12" ], "sample_taxid": [ "658187" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.164 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 95.83, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "4152613", "Number of Sequences": "58", "Longest Sequences (bp)": "314202", "N50 (bp)": "153222", "Gap Ratio (%)": "1.987399", "GCcontent (%)": "39.2", "Number of CDSs": "3599", "Average Protein Length": "320.5", "Coding Ratio (%)": "83.3", "Number of rRNAs": "4", "Number of tRNAs": "33", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Legionella drancourtii", "strain": "strain=LLAP12", "accession": "GCA_000162755.2", "taxid": 168933, "species_taxid": 168933, "relation_to_type": "type", "validated": true, "ani": 99.9998, "matched_fragments": 1336, "total_fragments": 1352, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Legionella rowbothamii", "strain": "strain=LLAP6", "accession": "GCA_900639985.1", "taxid": 96229, "species_taxid": 96229, "relation_to_type": "type", "validated": true, "ani": 79.86, "matched_fragments": 430, "total_fragments": 1352, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella lytica", "strain": "strain=PCM 2298", "accession": "GCA_023921225.1", "taxid": 96232, "species_taxid": 96232, "relation_to_type": "type", "validated": true, "ani": 79.3356, "matched_fragments": 401, "total_fragments": 1352, "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": 79.3111, "matched_fragments": 393, "total_fragments": 1352, "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": 79.0904, "matched_fragments": 345, "total_fragments": 1352, "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": 78.9041, "matched_fragments": 219, "total_fragments": 1352, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella gratiana", "strain": "strain=NCTC12388", "accession": "GCA_900452545.1", "taxid": 45066, "species_taxid": 45066, "relation_to_type": "type", "validated": true, "ani": 78.7069, "matched_fragments": 300, "total_fragments": 1352, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella gratiana", "strain": "strain=Lyon 8420412", "accession": "GCA_001467695.1", "taxid": 45066, "species_taxid": 45066, "relation_to_type": "type", "validated": true, "ani": 78.6897, "matched_fragments": 298, "total_fragments": 1352, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella gratiana", "strain": "strain=Lyon 8420412", "accession": "GCA_900639855.1", "taxid": 45066, "species_taxid": 45066, "relation_to_type": "type", "validated": true, "ani": 78.667, "matched_fragments": 296, "total_fragments": 1352, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Fluoribacter gormanii", "strain": "strain=NCTC11401", "accession": "GCA_900450965.1", "taxid": 464, "species_taxid": 464, "relation_to_type": "type", "validated": true, "ani": 78.4927, "matched_fragments": 326, "total_fragments": 1352, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Fluoribacter gormanii", "strain": "strain=ATCC 33297", "accession": "GCA_001648685.1", "taxid": 464, "species_taxid": 464, "relation_to_type": "type", "validated": true, "ani": 78.4483, "matched_fragments": 320, "total_fragments": 1352, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Fluoribacter gormanii", "strain": "strain=ATCC 33342", "accession": "GCA_900156395.1", "taxid": 464, "species_taxid": 464, "relation_to_type": "type", "validated": true, "ani": 78.4264, "matched_fragments": 320, "total_fragments": 1352, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Fluoribacter gormanii", "strain": "strain=LS-13", "accession": "GCA_900640095.1", "taxid": 464, "species_taxid": 464, "relation_to_type": "type", "validated": true, "ani": 78.2774, "matched_fragments": 307, "total_fragments": 1352, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella sainthelensi", "strain": "strain=Mt.St.Helens-4", "accession": "GCA_001468105.1", "taxid": 28087, "species_taxid": 28087, "relation_to_type": "type", "validated": true, "ani": 78.2687, "matched_fragments": 266, "total_fragments": 1352, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella wadsworthii", "strain": "strain=NCTC11532", "accession": "GCA_900452925.1", "taxid": 28088, "species_taxid": 28088, "relation_to_type": "type", "validated": true, "ani": 78.1468, "matched_fragments": 217, "total_fragments": 1352, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella wadsworthii", "strain": "strain=ATCC 33877", "accession": "GCA_000701265.1", "taxid": 28088, "species_taxid": 28088, "relation_to_type": "type", "validated": true, "ani": 78.0956, "matched_fragments": 217, "total_fragments": 1352, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 95.83, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000162755.2", "gtdb_species": "s__Legionella drancourtii", "ani": 99.9998, "matched_fragments": 1336, "total_fragments": 1352, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Legionellales;f__Legionellaceae;g__Legionella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "conclusive" }, { "accession": "GCF_001468135.1", "gtdb_species": "s__Legionella santicrucis", "ani": 80.3189, "matched_fragments": 340, "total_fragments": 1352, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Legionellales;f__Legionellaceae;g__Legionella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.96", "min_intra_species_ani": "99.96", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900639985.1", "gtdb_species": "s__Legionella rowbothamii", "ani": 79.8471, "matched_fragments": 431, "total_fragments": 1352, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Legionellales;f__Legionellaceae;g__Legionella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_001465875.1", "gtdb_species": "s__Legionella saoudiensis", "ani": 79.2992, "matched_fragments": 394, "total_fragments": 1352, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Legionellales;f__Legionellaceae;g__Legionella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_001467955.1", "gtdb_species": "s__Legionella quateirensis", "ani": 78.9032, "matched_fragments": 219, "total_fragments": 1352, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Legionellales;f__Legionellaceae;g__Legionella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.97", "min_intra_species_ani": "99.97", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_001467525.1", "gtdb_species": "s__Legionella anisa", "ani": 78.8933, "matched_fragments": 335, "total_fragments": 1352, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Legionellales;f__Legionellaceae;g__Legionella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.76", "min_intra_species_ani": "99.61", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.93", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_001467695.1", "gtdb_species": "s__Legionella gratiana", "ani": 78.6897, "matched_fragments": 298, "total_fragments": 1352, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Legionellales;f__Legionellaceae;g__Legionella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.98", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_001468065.1", "gtdb_species": "s__Legionella steigerwaltii", "ani": 78.6138, "matched_fragments": 311, "total_fragments": 1352, "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": "99.99", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000236165.1", "gtdb_species": "s__Legionella dumoffii", "ani": 78.5747, "matched_fragments": 286, "total_fragments": 1352, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Legionellales;f__Legionellaceae;g__Legionella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.81", "min_intra_species_ani": "99.55", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.94", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_016191305.1", "gtdb_species": "s__Legionella longbeachae_A", "ani": 78.4496, "matched_fragments": 221, "total_fragments": 1352, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Legionellales;f__Legionellaceae;g__Legionella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": "N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_900156395.1", "gtdb_species": "s__Legionella gormanii", "ani": 78.4439, "matched_fragments": 318, "total_fragments": 1352, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Legionellales;f__Legionellaceae;g__Legionella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.78", "min_intra_species_ani": "98.94", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.92", "num_clustered_genomes": 6, "status": "-" }, { "accession": "GCF_001648595.1", "gtdb_species": "s__Legionella bozemanae", "ani": 78.3949, "matched_fragments": 330, "total_fragments": 1352, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Legionellales;f__Legionellaceae;g__Legionella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.47", "min_intra_species_ani": "97.91", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.91", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_001468035.1", "gtdb_species": "s__Legionella tucsonensis", "ani": 78.3415, "matched_fragments": 293, "total_fragments": 1352, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Legionellales;f__Legionellaceae;g__Legionella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003184185.1", "gtdb_species": "s__Legionella qingyii", "ani": 78.3007, "matched_fragments": 311, "total_fragments": 1352, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Legionellales;f__Legionellaceae;g__Legionella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.87", "min_intra_species_ani": "99.76", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_900452415.1", "gtdb_species": "s__Legionella cincinnatiensis", "ani": 78.2664, "matched_fragments": 297, "total_fragments": 1352, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Legionellales;f__Legionellaceae;g__Legionella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.97", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_900637685.1", "gtdb_species": "s__Legionella sainthelensi", "ani": 78.1904, "matched_fragments": 263, "total_fragments": 1352, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Legionellales;f__Legionellaceae;g__Legionella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.79", "min_intra_species_ani": "95.71", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.89", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCF_000701265.1", "gtdb_species": "s__Legionella wadsworthii", "ani": 78.1124, "matched_fragments": 216, "total_fragments": 1352, "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": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "0.99", "num_clustered_genomes": 3, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.324, "cell_length": 0.259, "doubling_h": 0.38, "growth_tmp": 36.183, "optimum_tmp": 31.0, "optimum_ph": 6.9, "genome_size": 4067717.0, "gc_content": 39.2, "coding_genes": 2803.262, "rRNA16S_genes": 3.5, "tRNA_genes": 42.766, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 1.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Legionella", "drancourtii", "LLAP12" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }