{ "type": "genome", "identifier": "GCF_030295935.1", "organism": "Thalassotalea piscium", "title": "Thalassotalea piscium", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Laboratory of Microbiology, Division of Marine Life Science, Faculty of Fisheries Sciences, Hokkaido University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_030295935.1", "bioproject": "PRJNA224116", "biosample": "SAMD00582804", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "1230533", "species_taxid": "1230533", "organism_name": "Thalassotalea piscium", "infraspecific_name": "strain=JCM 18590", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/04/01", "asm_name": "ASM3029593v1", "asm_submitter": "Laboratory of Microbiology, Division of Marine Life Science, Faculty of Fisheries Sciences, Hokkaido University", "gbrs_paired_asm": "GCA_030295935.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/030/295/935/GCF_030295935.1_ASM3029593v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3903981", "genome_size_ungapped": "3903981", "gc_percent": "37.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_030295935.1-RS_2024_06_21", "annotation_date": "2024-06-21", "total_gene_count": "3486", "protein_coding_gene_count": "3378", "non_coding_gene_count": "85", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2023-04-01", "dateModified": "2023-04-01", "datePublished": "2023-04-01", "_annotation": { "sample_count": 1, "sample_organism": [ "Thalassotalea piscium" ], "sample_taxid": [ "1230533" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.096 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)": "3903981", "Number of Sequences": "1", "Longest Sequences (bp)": "3903981", "N50 (bp)": "3903981", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "37.5", "Number of CDSs": "3433", "Average Protein Length": "323.7", "Coding Ratio (%)": "85.4", "Number of rRNAs": "15", "Number of tRNAs": "66", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Thalassotalea piscium", "strain": "strain=DSM 26287", "accession": "GCA_014207645.1", "taxid": 1230533, "species_taxid": 1230533, "relation_to_type": "type", "validated": true, "ani": 99.9449, "matched_fragments": 1242, "total_fragments": 1301, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Thalassotalea profundi", "strain": "strain=CGMCC 1.15922", "accession": "GCA_014653195.1", "taxid": 2036687, "species_taxid": 2036687, "relation_to_type": "type", "validated": true, "ani": 80.4109, "matched_fragments": 620, "total_fragments": 1301, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Colwellia chukchiensis", "strain": "strain=CGMCC 1.9127", "accession": "GCA_002104455.1", "taxid": 641665, "species_taxid": 641665, "relation_to_type": "type", "validated": true, "ani": 79.9493, "matched_fragments": 226, "total_fragments": 1301, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Colwellia chukchiensis", "strain": "strain=CGMCC 1.9127", "accession": "GCA_900109795.1", "taxid": 641665, "species_taxid": 641665, "relation_to_type": "type", "validated": true, "ani": 79.9355, "matched_fragments": 217, "total_fragments": 1301, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Moritella yayanosii", "strain": "strain=DB21MT 5", "accession": "GCA_900465055.1", "taxid": 69539, "species_taxid": 69539, "relation_to_type": "type", "validated": true, "ani": 78.9023, "matched_fragments": 59, "total_fragments": 1301, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Litorilituus sediminis", "strain": "strain=JCM 17549", "accession": "GCA_004295665.1", "taxid": 718192, "species_taxid": 718192, "relation_to_type": "type", "validated": true, "ani": 78.558, "matched_fragments": 181, "total_fragments": 1301, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cognaticolwellia mytili", "strain": "strain=KCTC 52417", "accession": "GCA_002104475.1", "taxid": 1888913, "species_taxid": 1888913, "relation_to_type": "type", "validated": true, "ani": 78.2542, "matched_fragments": 221, "total_fragments": 1301, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas rhizosphaerae", "strain": "strain=RA15", "accession": "GCA_902498845.1", "taxid": 2518973, "species_taxid": 2518973, "relation_to_type": "type", "validated": true, "ani": 78.1377, "matched_fragments": 83, "total_fragments": 1301, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Colwellia ponticola", "strain": "strain=OISW-25", "accession": "GCA_005885605.1", "taxid": 2304625, "species_taxid": 2304625, "relation_to_type": "type", "validated": true, "ani": 77.9231, "matched_fragments": 205, "total_fragments": 1301, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudocolwellia agarivorans", "strain": "strain=QM50", "accession": "GCA_002000085.1", "taxid": 1911682, "species_taxid": 1911682, "relation_to_type": "type", "validated": true, "ani": 77.8038, "matched_fragments": 227, "total_fragments": 1301, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Colwellia echini", "strain": "strain=A3", "accession": "GCA_002843355.2", "taxid": 1982103, "species_taxid": 1982103, "relation_to_type": "type", "validated": true, "ani": 77.702, "matched_fragments": 190, "total_fragments": 1301, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thalassotalea marina", "strain": "strain=KCTC 42731", "accession": "GCA_014656435.1", "taxid": 1673741, "species_taxid": 1673741, "relation_to_type": "type", "validated": true, "ani": 77.5471, "matched_fragments": 193, "total_fragments": 1301, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Colwellia piezophila", "strain": "strain=ATCC BAA-637", "accession": "GCA_000378625.1", "taxid": 211668, "species_taxid": 211668, "relation_to_type": "type", "validated": true, "ani": 77.5408, "matched_fragments": 190, "total_fragments": 1301, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella ulleungensis", "strain": "strain=KCTC 62130", "accession": "GCA_023283965.1", "taxid": 2282699, "species_taxid": 2282699, "relation_to_type": "type", "validated": true, "ani": 76.5149, "matched_fragments": 51, "total_fragments": 1301, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoalteromonas denitrificans", "strain": "strain=DSM 6059", "accession": "GCA_900112265.1", "taxid": 43656, "species_taxid": 43656, "relation_to_type": "type", "validated": true, "ani": 76.4623, "matched_fragments": 104, "total_fragments": 1301, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Shewanella inventionis", "strain": "strain=KCTC 42807", "accession": "GCA_023283595.1", "taxid": 1738770, "species_taxid": 1738770, "relation_to_type": "type", "validated": true, "ani": 76.2751, "matched_fragments": 53, "total_fragments": 1301, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014207645.1", "gtdb_species": "s__Thalassotalea_B piscium", "ani": 99.9449, "matched_fragments": 1242, "total_fragments": 1301, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Thalassotalea_B", "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_014653195.1", "gtdb_species": "s__Thalassotalea_B profundi", "ani": 80.4109, "matched_fragments": 620, "total_fragments": 1301, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Thalassotalea_B", "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_004295665.1", "gtdb_species": "s__Litorilituus sediminis", "ani": 78.7851, "matched_fragments": 181, "total_fragments": 1301, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Litorilituus", "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_014077005.1", "gtdb_species": "s__Cognaticolwellia sp014077005", "ani": 78.2401, "matched_fragments": 198, "total_fragments": 1301, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Cognaticolwellia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.22", "min_intra_species_ani": "95.22", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.87", "num_clustered_genomes": 11, "status": "-" }, { "accession": "GCF_017168195.1", "gtdb_species": "s__G2M2-11 sp017168195", "ani": 78.1401, "matched_fragments": 231, "total_fragments": 1301, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__G2M2-11", "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_002836775.1", "gtdb_species": "s__Colwellia sp002836775", "ani": 78.0275, "matched_fragments": 196, "total_fragments": 1301, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Colwellia", "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_002000025.1", "gtdb_species": "s__Cognaticolwellia aestuarii", "ani": 77.9824, "matched_fragments": 254, "total_fragments": 1301, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Cognaticolwellia", "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_002836255.1", "gtdb_species": "s__Colwellia sp002836255", "ani": 77.9541, "matched_fragments": 206, "total_fragments": 1301, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Colwellia", "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_005885605.1", "gtdb_species": "s__Colwellia ponticola", "ani": 77.9229, "matched_fragments": 204, "total_fragments": 1301, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Colwellia", "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_013215385.1", "gtdb_species": "s__Colwellia_A sp013215385", "ani": 77.8793, "matched_fragments": 218, "total_fragments": 1301, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Colwellia_A", "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_001913705.1", "gtdb_species": "s__Thalassotalea_C sp001913705", "ani": 77.8483, "matched_fragments": 227, "total_fragments": 1301, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Thalassotalea_C", "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_013215295.1", "gtdb_species": "s__Colwellia_A sp013215295", "ani": 77.7937, "matched_fragments": 211, "total_fragments": 1301, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Colwellia_A", "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_013215655.1", "gtdb_species": "s__Colwellia_A sp013215655", "ani": 77.7574, "matched_fragments": 203, "total_fragments": 1301, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Colwellia_A", "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_014076845.1", "gtdb_species": "s__Colwellia_A sp014076845", "ani": 77.746, "matched_fragments": 215, "total_fragments": 1301, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Colwellia_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.15", "min_intra_species_ani": "95.49", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.86", "num_clustered_genomes": 8, "status": "-" }, { "accession": "GCF_002000085.1", "gtdb_species": "s__Pseudocolwellia agarivorans", "ani": 77.7355, "matched_fragments": 232, "total_fragments": 1301, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Pseudocolwellia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.36", "min_intra_species_ani": "95.36", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_015491935.1", "gtdb_species": "s__GCA-2401725 sp015491935", "ani": 77.6541, "matched_fragments": 176, "total_fragments": 1301, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__GCA-2401725", "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_003354085.1", "gtdb_species": "s__Cognaticolwellia sp003354085", "ani": 77.6415, "matched_fragments": 204, "total_fragments": 1301, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Cognaticolwellia", "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_014656435.1", "gtdb_species": "s__Thalassotalea_C marina", "ani": 77.549, "matched_fragments": 194, "total_fragments": 1301, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Enterobacterales;f__Alteromonadaceae;g__Thalassotalea_C", "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": -0.296, "cell_length": 0.141, "doubling_h": null, "growth_tmp": 28.0, "optimum_tmp": 27.5, "optimum_ph": 7.25, "genome_size": 3584097.5, "gc_content": 38.8, "coding_genes": 3255.0, "rRNA16S_genes": 6.0, "tRNA_genes": 72.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.666, "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": [ "Thalassotalea", "piscium" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }