{ "type": "genome", "identifier": "GCF_017498065.1", "organism": "Oceanisphaera pacifica", "title": "Oceanisphaera pacifica", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Shandong University at Weihai", "publication": [ {} ], "properties": { "assembly_accession": "GCF_017498065.1", "bioproject": "PRJNA224116", "biosample": "SAMN18271144", "wgs_master": "JAGDFX000000000.1", "refseq_category": "reference genome", "taxid": "2818389", "species_taxid": "2818389", "organism_name": "Oceanisphaera pacifica", "infraspecific_name": "strain=DM8", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/03/20", "asm_name": "ASM1749806v1", "asm_submitter": "Shandong University at Weihai", "gbrs_paired_asm": "GCA_017498065.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/017/498/065/GCF_017498065.1_ASM1749806v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3109059", "genome_size_ungapped": "3109059", "gc_percent": "47.000000", "replicon_count": "0", "scaffold_count": "37", "contig_count": "37", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_017498065.1-RS_2024_04_16", "annotation_date": "2024-04-16", "total_gene_count": "2865", "protein_coding_gene_count": "2727", "non_coding_gene_count": "103", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-03-20", "dateModified": "2021-03-20", "datePublished": "2021-03-20", "_annotation": { "sample_count": 1, "sample_organism": [ "Oceanisphaera pacifica" ], "sample_taxid": [ "2818389" ], "sample_host_organism": [ "Largehead hairtail" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Weihai" ], "sample_host_location_id": [], "data_size": "0.886 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)": "3109059", "Number of Sequences": "37", "Longest Sequences (bp)": "297660", "N50 (bp)": "197365", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "46.9", "Number of CDSs": "2770", "Average Protein Length": "317.8", "Coding Ratio (%)": "85.0", "Number of rRNAs": "5", "Number of tRNAs": "83", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Oceanisphaera pacifica", "strain": "strain=DM8", "accession": "GCA_017498065.1", "taxid": 2818389, "species_taxid": 2818389, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1016, "total_fragments": 1018, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Oceanisphaera profunda", "strain": "strain=SM1222", "accession": "GCA_002157895.1", "taxid": 1416627, "species_taxid": 1416627, "relation_to_type": "type", "validated": true, "ani": 79.4773, "matched_fragments": 494, "total_fragments": 1018, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanisphaera marina", "strain": "strain=CGMCC 1.15923", "accession": "GCA_014643915.1", "taxid": 2017550, "species_taxid": 2017550, "relation_to_type": "type", "validated": true, "ani": 79.0829, "matched_fragments": 436, "total_fragments": 1018, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanisphaera avium", "strain": "strain=AMac2203", "accession": "GCA_002157875.1", "taxid": 1903694, "species_taxid": 1903694, "relation_to_type": "type", "validated": true, "ani": 79.047, "matched_fragments": 391, "total_fragments": 1018, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanisphaera litoralis", "strain": "strain=DSM 15406", "accession": "GCA_016907015.1", "taxid": 225144, "species_taxid": 225144, "relation_to_type": "type", "validated": true, "ani": 78.205, "matched_fragments": 215, "total_fragments": 1018, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanisphaera arctica", "strain": "strain=V1-41", "accession": "GCA_002936955.1", "taxid": 641510, "species_taxid": 641510, "relation_to_type": "type", "validated": true, "ani": 78.0704, "matched_fragments": 235, "total_fragments": 1018, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanisphaera arctica", "strain": "strain=KCTC 23013", "accession": "GCA_014652055.1", "taxid": 641510, "species_taxid": 641510, "relation_to_type": "type", "validated": true, "ani": 78.0236, "matched_fragments": 243, "total_fragments": 1018, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanisphaera psychrotolerans", "strain": "strain=LAM-WHM-ZC", "accession": "GCA_001870485.1", "taxid": 1414654, "species_taxid": 1414654, "relation_to_type": "type", "validated": true, "ani": 77.9934, "matched_fragments": 205, "total_fragments": 1018, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_017498065.1", "gtdb_species": "s__Oceanisphaera sp017498065", "ani": 100.0, "matched_fragments": 1016, "total_fragments": 1018, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Aeromonadaceae;g__Oceanisphaera", "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_002157895.1", "gtdb_species": "s__Oceanisphaera profunda", "ani": 79.446, "matched_fragments": 494, "total_fragments": 1018, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Aeromonadaceae;g__Oceanisphaera", "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_014643915.1", "gtdb_species": "s__Oceanisphaera marina", "ani": 79.1142, "matched_fragments": 433, "total_fragments": 1018, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Aeromonadaceae;g__Oceanisphaera", "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_002157875.1", "gtdb_species": "s__Oceanisphaera avium", "ani": 79.0508, "matched_fragments": 390, "total_fragments": 1018, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Aeromonadaceae;g__Oceanisphaera", "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_018883865.1", "gtdb_species": "s__Oceanisphaera merdipullorum", "ani": 78.6733, "matched_fragments": 340, "total_fragments": 1018, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Aeromonadaceae;g__Oceanisphaera", "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_012518835.1", "gtdb_species": "s__Oceanisphaera sp012518835", "ani": 78.2887, "matched_fragments": 305, "total_fragments": 1018, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Aeromonadaceae;g__Oceanisphaera", "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_016907015.1", "gtdb_species": "s__Oceanisphaera litoralis", "ani": 78.2235, "matched_fragments": 213, "total_fragments": 1018, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Aeromonadaceae;g__Oceanisphaera", "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_018222825.1", "gtdb_species": "s__Oceanisphaera sp018222825", "ani": 78.1853, "matched_fragments": 189, "total_fragments": 1018, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Aeromonadaceae;g__Oceanisphaera", "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_002936955.1", "gtdb_species": "s__Oceanisphaera arctica", "ani": 78.0531, "matched_fragments": 237, "total_fragments": 1018, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Aeromonadaceae;g__Oceanisphaera", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003049725.1", "gtdb_species": "s__Oceanimonas marisflavi", "ani": 77.5407, "matched_fragments": 131, "total_fragments": 1018, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Aeromonadaceae;g__Oceanimonas", "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_000381965.1", "gtdb_species": "s__Oceanimonas smirnovii", "ani": 77.2549, "matched_fragments": 189, "total_fragments": 1018, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Aeromonadaceae;g__Oceanimonas", "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": -0.055, "cell_length": -0.082, "doubling_h": null, "growth_tmp": 29.666, "optimum_tmp": 30.0, "optimum_ph": 7.333, "genome_size": 3525114.5, "gc_content": 53.683, "coding_genes": 2894.0, "rRNA16S_genes": 8.0, "tRNA_genes": 91.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.666, "range_salinity": null, "facultative_respiration": 0.25, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.75, "mesophilic_range_tmp": 0.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 1.0, "bacillus_cell_shape": 0.5, "coccus_cell_shape": 0.5, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Oceanisphaera", "pacifica" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }