{ "type": "genome", "identifier": "GCF_001640115.1", "organism": "Polaribacter atrinae", "title": "Polaribacter atrinae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Korea University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_001640115.1", "bioproject": "PRJNA224116", "biosample": "SAMN04390154", "wgs_master": "LVWE00000000.1", "refseq_category": "na", "taxid": "1333662", "species_taxid": "1333662", "organism_name": "Polaribacter atrinae", "infraspecific_name": "strain=KACC 17473", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2016/05/06", "asm_name": "ASM164011v1", "asm_submitter": "Korea University", "gbrs_paired_asm": "GCA_001640115.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/001/640/115/GCF_001640115.1_ASM164011v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3942702", "genome_size_ungapped": "3942702", "gc_percent": "30.500000", "replicon_count": "0", "scaffold_count": "113", "contig_count": "113", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_001640115.1-RS_2024_10_23", "annotation_date": "2024-10-23", "total_gene_count": "3504", "protein_coding_gene_count": "3409", "non_coding_gene_count": "50", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2016-05-06", "dateModified": "2016-05-06", "datePublished": "2016-05-06", "_annotation": { "sample_count": 1, "sample_organism": [ "Polaribacter atrinae" ], "sample_taxid": [ "1333662" ], "sample_host_organism": [ "comb pen shell" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.084 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)": "3942702", "Number of Sequences": "113", "Longest Sequences (bp)": "379895", "N50 (bp)": "218854", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "30.4", "Number of CDSs": "3440", "Average Protein Length": "334.4", "Coding Ratio (%)": "87.5", "Number of rRNAs": "3", "Number of tRNAs": "42", "Number of CRISPRs": "4" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Polaribacter atrinae", "strain": "strain=KACC 17473", "accession": "GCA_001640115.1", "taxid": 1333662, "species_taxid": 1333662, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1263, "total_fragments": 1265, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Polaribacter sejongensis", "strain": "strain=KCTC 23670", "accession": "GCA_002814075.1", "taxid": 985043, "species_taxid": 985043, "relation_to_type": "type", "validated": true, "ani": 88.6672, "matched_fragments": 1001, "total_fragments": 1265, "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": 88.5963, "matched_fragments": 1015, "total_fragments": 1265, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter butkevichii", "strain": "strain=KCTC 12100", "accession": "GCA_002954605.1", "taxid": 218490, "species_taxid": 218490, "relation_to_type": "type", "validated": true, "ani": 86.9852, "matched_fragments": 915, "total_fragments": 1265, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter pectinis", "strain": "strain=L12M9", "accession": "GCA_014352875.1", "taxid": 2738844, "species_taxid": 2738844, "relation_to_type": "type", "validated": true, "ani": 81.4008, "matched_fragments": 696, "total_fragments": 1265, "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": 80.8281, "matched_fragments": 651, "total_fragments": 1265, "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": 80.1593, "matched_fragments": 608, "total_fragments": 1265, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter batillariae", "strain": "strain=G4M1", "accession": "GCA_017498485.1", "taxid": 2808900, "species_taxid": 2808900, "relation_to_type": "type", "validated": true, "ani": 80.1047, "matched_fragments": 574, "total_fragments": 1265, "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": 79.9772, "matched_fragments": 497, "total_fragments": 1265, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001640115.1", "gtdb_species": "s__Polaribacter atrinae", "ani": 100.0, "matched_fragments": 1263, "total_fragments": 1265, "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": "conclusive" }, { "accession": "GCF_002814075.1", "gtdb_species": "s__Polaribacter sejongensis", "ani": 88.6412, "matched_fragments": 1003, "total_fragments": 1265, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Polaribacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.48", "min_intra_species_ani": "97.48", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_019263805.1", "gtdb_species": "s__Polaribacter sp011379025", "ani": 88.1089, "matched_fragments": 992, "total_fragments": 1265, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Polaribacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.52", "min_intra_species_ani": "98.52", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_009796785.1", "gtdb_species": "s__Polaribacter sp009796785", "ani": 87.1764, "matched_fragments": 906, "total_fragments": 1265, "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_002954605.1", "gtdb_species": "s__Polaribacter butkevichii", "ani": 87.0027, "matched_fragments": 914, "total_fragments": 1265, "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_016858305.2", "gtdb_species": "s__Polaribacter sp016858305", "ani": 86.0726, "matched_fragments": 910, "total_fragments": 1265, "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": -0.351, "cell_length": 0.169, "doubling_h": null, "growth_tmp": 9.75, "optimum_tmp": 20.437, "optimum_ph": 7.25, "genome_size": 3918861.0, "gc_content": 31.525, "coding_genes": 3329.75, "rRNA16S_genes": 3.0, "tRNA_genes": 41.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.2, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 0.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 1.0, "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": [ "Polaribacter", "atrinae" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }