{ "type": "genome", "identifier": "GCF_004345825.1", "organism": "Tenacibaculum skagerrakense", "title": "Tenacibaculum skagerrakense", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_004345825.1", "bioproject": "PRJNA224116", "biosample": "SAMN10864689", "wgs_master": "SLXM00000000.1", "refseq_category": "reference genome", "taxid": "186571", "species_taxid": "186571", "organism_name": "Tenacibaculum skagerrakense", "infraspecific_name": "strain=DSM 14836", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/03/11", "asm_name": "ASM434582v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_004345825.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/004/345/825/GCF_004345825.1_ASM434582v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3712900", "genome_size_ungapped": "3712612", "gc_percent": "31.000000", "replicon_count": "0", "scaffold_count": "31", "contig_count": "31", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_004345825.1-RS_2024_10_26", "annotation_date": "2024-10-26", "total_gene_count": "3358", "protein_coding_gene_count": "3290", "non_coding_gene_count": "58", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-03-11", "dateModified": "2019-03-11", "datePublished": "2019-03-11", "_annotation": { "sample_count": 1, "sample_organism": [ "Tenacibaculum skagerrakense" ], "sample_taxid": [ "186571" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Denmark" ], "sample_host_location_id": [], "data_size": "1.023 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)": "3712900", "Number of Sequences": "31", "Longest Sequences (bp)": "902261", "N50 (bp)": "316461", "Gap Ratio (%)": "0.007757", "GCcontent (%)": "31.2", "Number of CDSs": "3287", "Average Protein Length": "338.2", "Coding Ratio (%)": "89.8", "Number of rRNAs": "2", "Number of tRNAs": "49", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Tenacibaculum skagerrakense", "strain": "strain=DSM 14836", "accession": "GCA_004345825.1", "taxid": 186571, "species_taxid": 186571, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1223, "total_fragments": 1223, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Tenacibaculum jejuense", "strain": "strain=type strain: KCTC 22618", "accession": "GCA_900198195.1", "taxid": 584609, "species_taxid": 584609, "relation_to_type": "type", "validated": true, "ani": 79.2871, "matched_fragments": 609, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tenacibaculum agarivorans", "strain": "strain=HZ1", "accession": "GCA_001936575.1", "taxid": 1908389, "species_taxid": 1908389, "relation_to_type": "type", "validated": true, "ani": 79.1322, "matched_fragments": 571, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tenacibaculum holothuriorum", "strain": "strain=S2-2", "accession": "GCA_002120225.1", "taxid": 1635173, "species_taxid": 1635173, "relation_to_type": "type", "validated": true, "ani": 78.7395, "matched_fragments": 420, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tenacibaculum pelagium", "strain": "strain=S7007", "accession": "GCA_014062345.1", "taxid": 2759527, "species_taxid": 2759527, "relation_to_type": "type", "validated": true, "ani": 78.6543, "matched_fragments": 355, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tenacibaculum adriaticum", "strain": "strain=DSM 18961", "accession": "GCA_008124875.1", "taxid": 413713, "species_taxid": 413713, "relation_to_type": "type", "validated": true, "ani": 78.3732, "matched_fragments": 389, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tenacibaculum discolor", "strain": "strain=DSM 18842", "accession": "GCA_003664185.1", "taxid": 361581, "species_taxid": 361581, "relation_to_type": "type", "validated": true, "ani": 78.3197, "matched_fragments": 414, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tenacibaculum mesophilum", "strain": "strain=DSM 13764", "accession": "GCA_003867075.1", "taxid": 104268, "species_taxid": 104268, "relation_to_type": "type", "validated": true, "ani": 78.2718, "matched_fragments": 377, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tenacibaculum gallaicum", "strain": "strain=DSM 18841", "accession": "GCA_003387615.1", "taxid": 561505, "species_taxid": 561505, "relation_to_type": "type", "validated": true, "ani": 78.2691, "matched_fragments": 385, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tenacibaculum mesophilum", "strain": "strain=DSM 13764", "accession": "GCA_009362255.1", "taxid": 104268, "species_taxid": 104268, "relation_to_type": "type", "validated": true, "ani": 78.2427, "matched_fragments": 377, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tenacibaculum mesophilum", "strain": "strain=DSM 13764", "accession": "GCA_900129475.1", "taxid": 104268, "species_taxid": 104268, "relation_to_type": "type", "validated": true, "ani": 78.2403, "matched_fragments": 375, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tenacibaculum caenipelagi", "strain": "strain=CECT 8283", "accession": "GCA_004363005.1", "taxid": 1325435, "species_taxid": 1325435, "relation_to_type": "type", "validated": true, "ani": 78.1973, "matched_fragments": 381, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tenacibaculum aiptasiae", "strain": "strain=a4", "accession": "GCA_008806755.1", "taxid": 426481, "species_taxid": 426481, "relation_to_type": "type", "validated": true, "ani": 78.1824, "matched_fragments": 399, "total_fragments": 1223, "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": 77.6756, "matched_fragments": 323, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tenacibaculum aquimarinum", "strain": "strain=K20-16", "accession": "GCA_022478115.1", "taxid": 2910675, "species_taxid": 2910675, "relation_to_type": "type", "validated": true, "ani": 77.609, "matched_fragments": 340, "total_fragments": 1223, "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": 77.3626, "matched_fragments": 265, "total_fragments": 1223, "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": 77.2379, "matched_fragments": 286, "total_fragments": 1223, "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": 77.1803, "matched_fragments": 288, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter haliotis", "strain": "strain=KCTC 52418", "accession": "GCA_014784055.1", "taxid": 1888915, "species_taxid": 1888915, "relation_to_type": "type", "validated": true, "ani": 77.0679, "matched_fragments": 282, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter haliotis", "strain": "strain=RA4-7", "accession": "GCA_002201315.1", "taxid": 1888915, "species_taxid": 1888915, "relation_to_type": "type", "validated": true, "ani": 76.9899, "matched_fragments": 276, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter cellanae", "strain": "strain=SM13", "accession": "GCA_017569185.1", "taxid": 2818493, "species_taxid": 2818493, "relation_to_type": "type", "validated": true, "ani": 76.9566, "matched_fragments": 281, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter litorisediminis", "strain": "strain=OITF-11", "accession": "GCA_019968605.1", "taxid": 1908341, "species_taxid": 1908341, "relation_to_type": "type", "validated": true, "ani": 76.7112, "matched_fragments": 239, "total_fragments": 1223, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_004345825.1", "gtdb_species": "s__Tenacibaculum skagerrakense", "ani": 100.0, "matched_fragments": 1223, "total_fragments": 1223, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Tenacibaculum", "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_002813915.1", "gtdb_species": "s__Tenacibaculum sp002813915", "ani": 81.5731, "matched_fragments": 799, "total_fragments": 1223, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Tenacibaculum", "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_900198195.1", "gtdb_species": "s__Tenacibaculum jejuense", "ani": 79.2757, "matched_fragments": 611, "total_fragments": 1223, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Tenacibaculum", "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_001936575.1", "gtdb_species": "s__Tenacibaculum agarivorans", "ani": 79.1389, "matched_fragments": 571, "total_fragments": 1223, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Tenacibaculum", "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_004337695.1", "gtdb_species": "s__Tenacibaculum sp004337695", "ani": 78.8312, "matched_fragments": 546, "total_fragments": 1223, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Tenacibaculum", "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_002120225.1", "gtdb_species": "s__Tenacibaculum holothuriorum", "ani": 78.7395, "matched_fragments": 420, "total_fragments": 1223, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Tenacibaculum", "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_008124875.1", "gtdb_species": "s__Tenacibaculum adriaticum", "ani": 78.3532, "matched_fragments": 391, "total_fragments": 1223, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Tenacibaculum", "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_003867075.1", "gtdb_species": "s__Tenacibaculum mesophilum", "ani": 78.2977, "matched_fragments": 378, "total_fragments": 1223, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Tenacibaculum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.18", "min_intra_species_ani": "98.30", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.93", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCA_004762155.1", "gtdb_species": "s__Tenacibaculum sp004762155", "ani": 77.8401, "matched_fragments": 464, "total_fragments": 1223, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Tenacibaculum", "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_000766795.1", "gtdb_species": "s__Polaribacter sp000766795", "ani": 77.5595, "matched_fragments": 321, "total_fragments": 1223, "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_018861005.1", "gtdb_species": "s__Polaribacter vadi_A", "ani": 77.24, "matched_fragments": 315, "total_fragments": 1223, "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": "GCA_905480405.1", "gtdb_species": "s__Polaribacter sp905480405", "ani": 77.1736, "matched_fragments": 267, "total_fragments": 1223, "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": -0.302, "cell_length": 0.929, "doubling_h": null, "growth_tmp": 25.0, "optimum_tmp": 31.0, "optimum_ph": 7.5, "genome_size": 3463422.544, "gc_content": 31.23, "coding_genes": 3101.055, "rRNA16S_genes": 6.5, "tRNA_genes": 63.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.062, "aerobic_respiration": 0.937, "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": [ "Tenacibaculum", "skagerrakense" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }