{ "type": "genome", "identifier": "GCF_018603515.1", "organism": "Zobellia barbeyronii", "title": "Zobellia barbeyronii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Pacific Institute of Bioorganic Chemistry", "publication": [ {} ], "properties": { "assembly_accession": "GCF_018603515.1", "bioproject": "PRJNA224116", "biosample": "SAMN15354822", "wgs_master": "JACATN000000000.1", "refseq_category": "reference genome", "taxid": "2748009", "species_taxid": "2748009", "organism_name": "Zobellia barbeyronii", "infraspecific_name": "strain=KMM 6746", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/05/31", "asm_name": "ASM1860351v1", "asm_submitter": "Pacific Institute of Bioorganic Chemistry", "gbrs_paired_asm": "GCA_018603515.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/018/603/515/GCF_018603515.1_ASM1860351v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4977540", "genome_size_ungapped": "4977540", "gc_percent": "36.500000", "replicon_count": "0", "scaffold_count": "37", "contig_count": "37", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_018603515.1-RS_2024_10_23", "annotation_date": "2024-10-23", "total_gene_count": "4126", "protein_coding_gene_count": "4067", "non_coding_gene_count": "46", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-05-31", "dateModified": "2021-05-31", "datePublished": "2021-05-31", "_annotation": { "sample_count": 1, "sample_organism": [ "Zobellia barbeyronii" ], "sample_taxid": [ "2748009" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Russia: Sea of Okhotsk, Kuril Islands, Yankicha Island, Kraternaya Bay" ], "sample_host_location_id": [], "data_size": "1.403 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)": "4977540", "Number of Sequences": "37", "Longest Sequences (bp)": "1101338", "N50 (bp)": "927759", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "36.7", "Number of CDSs": "4016", "Average Protein Length": "367.9", "Coding Ratio (%)": "89.1", "Number of rRNAs": "3", "Number of tRNAs": "40", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Zobellia barbeyronii", "strain": "strain=KMM 6746", "accession": "GCA_018603515.1", "taxid": 2748009, "species_taxid": 2748009, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1645, "total_fragments": 1646, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Zobellia laminariae", "strain": "strain=KMM 3676", "accession": "GCA_009725995.1", "taxid": 248906, "species_taxid": 248906, "relation_to_type": "type", "validated": true, "ani": 94.7903, "matched_fragments": 1459, "total_fragments": 1646, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Zobellia nedashkovskayae", "strain": "strain=Asnod2-B07-B", "accession": "GCA_015330125.1", "taxid": 2779510, "species_taxid": 2779510, "relation_to_type": "type", "validated": true, "ani": 90.4697, "matched_fragments": 1398, "total_fragments": 1646, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Zobellia amurskyensis", "strain": "strain=KMM 3526", "accession": "GCA_009725985.1", "taxid": 248905, "species_taxid": 248905, "relation_to_type": "type", "validated": true, "ani": 84.6567, "matched_fragments": 1132, "total_fragments": 1646, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Zobellia roscoffensis", "strain": "strain=Asnod1-F08", "accession": "GCA_015330165.1", "taxid": 2779508, "species_taxid": 2779508, "relation_to_type": "type", "validated": true, "ani": 82.2553, "matched_fragments": 1055, "total_fragments": 1646, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Zobellia russellii", "strain": "strain=KMM 3677", "accession": "GCA_018728565.1", "taxid": 248907, "species_taxid": 248907, "relation_to_type": "type", "validated": true, "ani": 81.3181, "matched_fragments": 979, "total_fragments": 1646, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Zobellia galactanivorans", "strain": "strain=DsiJT", "accession": "GCA_000973105.1", "taxid": 63186, "species_taxid": 63186, "relation_to_type": "type", "validated": true, "ani": 79.8663, "matched_fragments": 764, "total_fragments": 1646, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Algibacter pacificus", "strain": "strain=H164", "accession": "GCA_008033385.1", "taxid": 2599389, "species_taxid": 2599389, "relation_to_type": "type", "validated": true, "ani": 76.5659, "matched_fragments": 92, "total_fragments": 1646, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hyunsoonleella ulvae", "strain": "strain=HU1-3", "accession": "GCA_016827605.1", "taxid": 2799948, "species_taxid": 2799948, "relation_to_type": "type", "validated": true, "ani": 76.435, "matched_fragments": 78, "total_fragments": 1646, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Joostella atrarenae", "strain": "strain=M1-2", "accession": "GCA_021764745.1", "taxid": 679257, "species_taxid": 679257, "relation_to_type": "type", "validated": true, "ani": 76.371, "matched_fragments": 106, "total_fragments": 1646, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hanstruepera marina", "strain": "strain=NBU2968", "accession": "GCA_019880635.1", "taxid": 2873265, "species_taxid": 2873265, "relation_to_type": "type", "validated": true, "ani": 76.2396, "matched_fragments": 77, "total_fragments": 1646, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_018603515.1", "gtdb_species": "s__Zobellia sp018603515", "ani": 100.0, "matched_fragments": 1645, "total_fragments": 1646, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Zobellia", "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_009725995.1", "gtdb_species": "s__Zobellia laminariae", "ani": 94.7903, "matched_fragments": 1459, "total_fragments": 1646, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Zobellia", "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_015330125.1", "gtdb_species": "s__Zobellia sp015330125", "ani": 90.4697, "matched_fragments": 1398, "total_fragments": 1646, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Zobellia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.14", "min_intra_species_ani": "98.14", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_009725985.1", "gtdb_species": "s__Zobellia amurskyensis", "ani": 84.6576, "matched_fragments": 1132, "total_fragments": 1646, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Zobellia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.14", "min_intra_species_ani": "98.14", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_018860745.1", "gtdb_species": "s__Zobellia uliginosa_B", "ani": 83.1893, "matched_fragments": 1154, "total_fragments": 1646, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Zobellia", "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_015330165.1", "gtdb_species": "s__Zobellia sp015330165", "ani": 82.2626, "matched_fragments": 1054, "total_fragments": 1646, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Zobellia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.41", "min_intra_species_ani": "98.41", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_018728565.1", "gtdb_species": "s__Zobellia russellii", "ani": 81.3181, "matched_fragments": 979, "total_fragments": 1646, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Zobellia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.51", "min_intra_species_ani": "97.51", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.393, "cell_length": 0.179, "doubling_h": null, "growth_tmp": 27.0, "optimum_tmp": 26.875, "optimum_ph": null, "genome_size": 5426147.0, "gc_content": 42.79, "coding_genes": 4523.0, "rRNA16S_genes": 2.0, "tRNA_genes": 40.0, "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": [ "Zobellia", "barbeyronii" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }