{ "type": "genome", "identifier": "GCF_023921225.1", "organism": "Legionella lytica", "title": "Legionella lytica", "description": "na", "data type": "Genome sequencing and assembly", "organization": "UMCS", "publication": [ {} ], "properties": { "assembly_accession": "GCF_023921225.1", "bioproject": "PRJNA224116", "biosample": "SAMN18221538", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "96232", "species_taxid": "96232", "organism_name": "Legionella lytica", "infraspecific_name": "strain=PCM 2298", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2022/06/27", "asm_name": "ASM2392122v1", "asm_submitter": "UMCS", "gbrs_paired_asm": "GCA_023921225.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/023/921/225/GCF_023921225.1_ASM2392122v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3707997", "genome_size_ungapped": "3707997", "gc_percent": "39.500000", "replicon_count": "3", "scaffold_count": "3", "contig_count": "3", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_023921225.1-RS_2024_12_09", "annotation_date": "2024-12-09", "total_gene_count": "3247", "protein_coding_gene_count": "3134", "non_coding_gene_count": "59", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2022-06-27", "dateModified": "2022-06-27", "datePublished": "2022-06-27", "_annotation": { "sample_count": 1, "sample_organism": [ "Legionella lytica" ], "sample_taxid": [ "96232" ], "sample_host_organism": [ "Acanthamoeba castellanii" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Poland: Lublin" ], "sample_host_location_id": [], "data_size": "1.052 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)": "3707997", "Number of Sequences": "3", "Longest Sequences (bp)": "3198081", "N50 (bp)": "3198081", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "39.6", "Number of CDSs": "3176", "Average Protein Length": "338.1", "Coding Ratio (%)": "86.9", "Number of rRNAs": "12", "Number of tRNAs": "43", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Legionella lytica", "strain": "strain=PCM 2298", "accession": "GCA_023921225.1", "taxid": 96232, "species_taxid": 96232, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1223, "total_fragments": 1235, "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": 86.9469, "matched_fragments": 973, "total_fragments": 1235, "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": 84.6658, "matched_fragments": 882, "total_fragments": 1235, "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": 79.3639, "matched_fragments": 400, "total_fragments": 1235, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella bononiensis", "strain": "strain=30cs62", "accession": "GCA_016786415.1", "taxid": 2793102, "species_taxid": 2793102, "relation_to_type": "type", "validated": true, "ani": 78.9006, "matched_fragments": 160, "total_fragments": 1235, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella antarctica", "strain": "strain=TUM19329", "accession": "GCA_011764505.1", "taxid": 2708020, "species_taxid": 2708020, "relation_to_type": "type", "validated": true, "ani": 78.7993, "matched_fragments": 169, "total_fragments": 1235, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella longbeachae", "strain": "strain=FDAARGOS_1481", "accession": "GCA_019930685.1", "taxid": 450, "species_taxid": 450, "relation_to_type": "type", "validated": true, "ani": 78.7576, "matched_fragments": 211, "total_fragments": 1235, "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": 78.6812, "matched_fragments": 266, "total_fragments": 1235, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella bozemanae", "strain": "strain=WIGA", "accession": "GCA_001467045.1", "taxid": 447, "species_taxid": 447, "relation_to_type": "type", "validated": true, "ani": 78.3605, "matched_fragments": 252, "total_fragments": 1235, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella tucsonensis", "strain": "strain=ATCC 49180", "accession": "GCA_001468035.1", "taxid": 40335, "species_taxid": 40335, "relation_to_type": "type", "validated": true, "ani": 78.1773, "matched_fragments": 228, "total_fragments": 1235, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Legionella tucsonensis", "strain": "strain=1087-AZ-H", "accession": "GCA_900640035.1", "taxid": 40335, "species_taxid": 40335, "relation_to_type": "type", "validated": true, "ani": 78.084, "matched_fragments": 226, "total_fragments": 1235, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900639985.1", "gtdb_species": "s__Legionella rowbothamii", "ani": 86.9214, "matched_fragments": 975, "total_fragments": 1235, "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": 84.6739, "matched_fragments": 883, "total_fragments": 1235, "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_000162755.2", "gtdb_species": "s__Legionella drancourtii", "ani": 79.3703, "matched_fragments": 399, "total_fragments": 1235, "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_000236165.1", "gtdb_species": "s__Legionella dumoffii", "ani": 78.9275, "matched_fragments": 221, "total_fragments": 1235, "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": "GCF_001467525.1", "gtdb_species": "s__Legionella anisa", "ani": 78.9059, "matched_fragments": 260, "total_fragments": 1235, "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_011764505.1", "gtdb_species": "s__Legionella sp011764505", "ani": 78.8946, "matched_fragments": 167, "total_fragments": 1235, "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", 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