{ "type": "genome", "identifier": "GCF_900106565.1", "organism": "Lutibacter oricola", "title": "Lutibacter oricola", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE - JOINT GENOME INSTITUTE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900106565.1", "bioproject": "PRJNA224116", "biosample": "SAMN05444411", "wgs_master": "FNNJ00000000.1", "refseq_category": "reference genome", "taxid": "762486", "species_taxid": "762486", "organism_name": "Lutibacter oricola", "infraspecific_name": "strain=DSM 24956", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/10/22", "asm_name": "IMG-taxon 2693429896 annotated assembly", "asm_submitter": "DOE - JOINT GENOME INSTITUTE", "gbrs_paired_asm": "GCA_900106565.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/106/565/GCF_900106565.1_IMG-taxon_2693429896_annotated_assembly", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4129954", "genome_size_ungapped": "4129954", "gc_percent": "30.000000", "replicon_count": "0", "scaffold_count": "58", "contig_count": "58", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900106565.1-RS_2024_10_22", "annotation_date": "2024-10-22", "total_gene_count": "3498", "protein_coding_gene_count": "3437", "non_coding_gene_count": "51", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-10-22", "dateModified": "2016-10-22", "datePublished": "2016-10-22", "_annotation": { "sample_count": 1, "sample_organism": [ "Lutibacter oricola" ], "sample_taxid": [ "762486" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.127 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)": "4129954", "Number of Sequences": "58", "Longest Sequences (bp)": "1148345", "N50 (bp)": "358409", "Gap Ratio (%)": "0.000024", "GCcontent (%)": "30.1", "Number of CDSs": "3437", "Average Protein Length": "362.6", "Coding Ratio (%)": "90.5", "Number of rRNAs": "3", "Number of tRNAs": "44", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Lutibacter oricola", "strain": "strain=DSM 24956", "accession": "GCA_900106565.1", "taxid": 762486, "species_taxid": 762486, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1347, "total_fragments": 1349, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Lutibacter citreus", "strain": "strain=1KV19", "accession": "GCA_003260195.1", "taxid": 2138210, "species_taxid": 2138210, "relation_to_type": "type", "validated": true, "ani": 80.8228, "matched_fragments": 764, "total_fragments": 1349, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lutibacter agarilyticus", "strain": "strain=DSM 29150", "accession": "GCA_900188235.1", "taxid": 1109740, "species_taxid": 1109740, "relation_to_type": "type", "validated": true, "ani": 79.8758, "matched_fragments": 582, "total_fragments": 1349, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lutibacter oceani", "strain": "strain=325-5", "accession": "GCA_003384935.1", "taxid": 1853311, "species_taxid": 1853311, "relation_to_type": "type", "validated": true, "ani": 79.6277, "matched_fragments": 543, "total_fragments": 1349, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lutibacter oceani", "strain": "strain=JCM30924", "accession": "GCA_003426875.1", "taxid": 1853311, "species_taxid": 1853311, "relation_to_type": "type", "validated": true, "ani": 79.6068, "matched_fragments": 559, "total_fragments": 1349, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lutibacter flavus", "strain": "strain=DSM 27993", "accession": "GCA_900188355.1", "taxid": 691689, "species_taxid": 691689, "relation_to_type": "type", "validated": true, "ani": 79.5434, "matched_fragments": 556, "total_fragments": 1349, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lutibacter maritimus", "strain": "strain=DSM 24450", "accession": "GCA_900116115.1", "taxid": 593133, "species_taxid": 593133, "relation_to_type": "type", "validated": true, "ani": 79.2001, "matched_fragments": 532, "total_fragments": 1349, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lutibacter profundi", "strain": "strain=LP1", "accession": "GCA_001543325.1", "taxid": 1622118, "species_taxid": 1622118, "relation_to_type": "type", "validated": true, "ani": 78.3665, "matched_fragments": 428, "total_fragments": 1349, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tenacibaculum haliotis", "strain": "strain=KCTC 52419", "accession": "GCA_025215075.1", "taxid": 1888914, "species_taxid": 1888914, "relation_to_type": "type", "validated": true, "ani": 77.557, "matched_fragments": 239, "total_fragments": 1349, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tenacibaculum todarodis", "strain": "strain=LPB0136", "accession": "GCA_001889045.1", "taxid": 1850252, "species_taxid": 1850252, "relation_to_type": "type", "validated": true, "ani": 77.5204, "matched_fragments": 273, "total_fragments": 1349, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter undariae", "strain": "strain=KCTC 42175", "accession": "GCA_024918935.1", "taxid": 1574269, "species_taxid": 1574269, "relation_to_type": "type", "validated": true, "ani": 77.3825, "matched_fragments": 330, "total_fragments": 1349, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter dokdonensis", "strain": "strain=KCTC 12392", "accession": "GCA_024362345.1", "taxid": 326329, "species_taxid": 326329, "relation_to_type": "type", "validated": true, "ani": 77.3133, "matched_fragments": 234, "total_fragments": 1349, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter septentrionalilitoris", "strain": "strain=ANORD1", "accession": "GCA_009832745.1", "taxid": 2494657, "species_taxid": 2494657, "relation_to_type": "type", "validated": true, "ani": 77.2742, "matched_fragments": 255, "total_fragments": 1349, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter vadi", "strain": "strain=LPB0003", "accession": "GCA_001761365.1", "taxid": 1774273, "species_taxid": 1774273, "relation_to_type": "type", "validated": true, "ani": 77.0887, "matched_fragments": 277, "total_fragments": 1349, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900106565.1", "gtdb_species": "s__Lutibacter oricola", "ani": 100.0, "matched_fragments": 1347, "total_fragments": 1349, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Lutibacter", "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_003260195.1", "gtdb_species": "s__Lutibacter citreus", "ani": 80.8254, "matched_fragments": 763, "total_fragments": 1349, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Lutibacter", "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_900188235.1", "gtdb_species": "s__Lutibacter agarilyticus", "ani": 79.8889, "matched_fragments": 581, "total_fragments": 1349, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Lutibacter", "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_003384935.1", "gtdb_species": "s__Lutibacter oceani", "ani": 79.5916, "matched_fragments": 546, "total_fragments": 1349, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Lutibacter", "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_900188355.1", "gtdb_species": "s__Lutibacter flavus", "ani": 79.5384, "matched_fragments": 556, "total_fragments": 1349, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Lutibacter", "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_014646675.1", "gtdb_species": "s__Lutibacter litoralis", "ani": 79.5028, "matched_fragments": 549, "total_fragments": 1349, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Lutibacter", "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": "GCA_004195315.1", "gtdb_species": "s__Lutibacter sp004195315", "ani": 79.093, "matched_fragments": 313, "total_fragments": 1349, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Lutibacter", "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_004121075.1", "gtdb_species": "s__Lutibacter sp004121075", "ani": 79.0831, "matched_fragments": 476, "total_fragments": 1349, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Lutibacter", "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": "GCA_013139515.1", "gtdb_species": "s__Lutibacter sp013139515", "ani": 78.9303, "matched_fragments": 436, "total_fragments": 1349, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Lutibacter", "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": "GCA_015767395.1", "gtdb_species": "s__Lutibacter sp015767395", "ani": 78.478, "matched_fragments": 288, "total_fragments": 1349, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Lutibacter", "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_000687935.1", "gtdb_species": "s__Polaribacter sp000687935", "ani": 77.2969, "matched_fragments": 270, "total_fragments": 1349, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Polaribacter", "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_000152945.2", "gtdb_species": "s__Polaribacter sp000152945", "ani": 77.2771, "matched_fragments": 226, "total_fragments": 1349, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Polaribacter", "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.438, "cell_length": 0.159, "doubling_h": null, "growth_tmp": 28.0, "optimum_tmp": 28.0, "optimum_ph": 7.437, "genome_size": 4129954.0, "gc_content": 29.8, "coding_genes": 2544.0, "rRNA16S_genes": 2.0, "tRNA_genes": 40.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": null, "thermophilic_range_tmp": null, "psychrophilic_range_tmp": null, "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": [ "Lutibacter", "oricola" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }