{ "type": "genome", "identifier": "GCF_000943565.1", "organism": "Tamlana sedimentorum", "title": "Tamlana sedimentorum", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Third Institute of Oceanography, State Oceanic Administration", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000943565.1", "bioproject": "PRJNA224116", "biosample": "SAMN03198753", "wgs_master": "JTDW00000000.1", "refseq_category": "reference genome", "taxid": "1435349", "species_taxid": "1435349", "organism_name": "Tamlana sedimentorum", "infraspecific_name": "strain=JCM 19808", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2015/03/04", "asm_name": "ASM94356v1", "asm_submitter": "Third Institute of Oceanography, State Oceanic Administration", "gbrs_paired_asm": "GCA_000943565.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/943/565/GCF_000943565.1_ASM94356v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3961353", "genome_size_ungapped": "3961353", "gc_percent": "33.000000", "replicon_count": "0", "scaffold_count": "52", "contig_count": "52", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000943565.1-RS_2024_10_22", "annotation_date": "2024-10-22", "total_gene_count": "3427", "protein_coding_gene_count": "3365", "non_coding_gene_count": "47", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2015-03-04", "dateModified": "2015-03-04", "datePublished": "2015-03-04", "_annotation": { "sample_count": 1, "sample_organism": [ "Tamlana sedimentorum" ], "sample_taxid": [ "1435349" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Pacific Ocean: Sea of Japan, seashore" ], "sample_host_location_id": [], "data_size": "1.101 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)": "3961353", "Number of Sequences": "52", "Longest Sequences (bp)": "618732", "N50 (bp)": "437270", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "32.9", "Number of CDSs": "3361", "Average Protein Length": "354.2", "Coding Ratio (%)": "90.2", "Number of rRNAs": "3", "Number of tRNAs": "40", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Tamlana sedimentorum", "strain": "strain=JCM 19808", "accession": "GCA_000943565.1", "taxid": 1435349, "species_taxid": 1435349, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1294, "total_fragments": 1298, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Tamlana nanhaiensis", "strain": "strain=FHC16", "accession": "GCA_000943555.1", "taxid": 1382798, "species_taxid": 1382798, "relation_to_type": "type", "validated": true, "ani": 83.211, "matched_fragments": 790, "total_fragments": 1298, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Seonamhaeicola algicola", "strain": "strain=Gy8", "accession": "GCA_007997385.1", "taxid": 1719036, "species_taxid": 1719036, "relation_to_type": "type", "validated": true, "ani": 78.9673, "matched_fragments": 470, "total_fragments": 1298, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Algibacter amylolyticus", "strain": "strain=DSM 29199", "accession": "GCA_014202225.1", "taxid": 1608400, "species_taxid": 1608400, "relation_to_type": "type", "validated": true, "ani": 78.8633, "matched_fragments": 493, "total_fragments": 1298, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Algibacter amylolyticus", "strain": "strain=RU-4-M-4", "accession": "GCA_007559325.1", "taxid": 1608400, "species_taxid": 1608400, "relation_to_type": "type", "validated": true, "ani": 78.8455, "matched_fragments": 491, "total_fragments": 1298, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Algibacter amylolyticus", "strain": "strain=RU-4-M-4", "accession": "GCA_008630605.1", "taxid": 1608400, "species_taxid": 1608400, "relation_to_type": "type", "validated": true, "ani": 78.8454, "matched_fragments": 491, "total_fragments": 1298, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arenitalea lutea", "strain": "strain=CGMCC 1.12213", "accession": "GCA_900141715.1", "taxid": 1178825, "species_taxid": 1178825, "relation_to_type": "type", "validated": true, "ani": 78.3831, "matched_fragments": 411, "total_fragments": 1298, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Arenitalea lutea", "strain": "strain=P7-3-5", "accession": "GCA_000283015.1", "taxid": 1178825, "species_taxid": 1178825, "relation_to_type": "type", "validated": true, "ani": 78.3216, "matched_fragments": 417, "total_fragments": 1298, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tamlana agarivorans", "strain": "strain=JW-26", "accession": "GCA_001642835.1", "taxid": 481183, "species_taxid": 481183, "relation_to_type": "type", "validated": true, "ani": 78.2224, "matched_fragments": 334, "total_fragments": 1298, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tamlana carrageenivorans", "strain": "strain=UJ94", "accession": "GCA_002893765.1", "taxid": 2069432, "species_taxid": 2069432, "relation_to_type": "type", "validated": true, "ani": 78.2036, "matched_fragments": 334, "total_fragments": 1298, "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": 78.1287, "matched_fragments": 420, "total_fragments": 1298, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mariniflexile fucanivorans", "strain": "strain=DSM 18792", "accession": "GCA_004341235.1", "taxid": 264023, "species_taxid": 264023, "relation_to_type": "type", "validated": true, "ani": 78.0969, "matched_fragments": 440, "total_fragments": 1298, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hyunsoonleella flava", "strain": "strain=T58", "accession": "GCA_004310325.1", "taxid": 2527939, "species_taxid": 2527939, "relation_to_type": "type", "validated": true, "ani": 77.7287, "matched_fragments": 301, "total_fragments": 1298, "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": 77.7146, "matched_fragments": 202, "total_fragments": 1298, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hanstruepera flava", "strain": "strain=NBU2984", "accession": "GCA_023634025.1", "taxid": 2930218, "species_taxid": 2930218, "relation_to_type": "type", "validated": true, "ani": 77.6842, "matched_fragments": 216, "total_fragments": 1298, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesoflavibacter zeaxanthinifaciens subsp. sabulilitoris", "strain": "strain=KCTC 42117", "accession": "GCA_003008435.1", "taxid": 1520893, "species_taxid": 393060, "relation_to_type": "type", "validated": true, "ani": 77.6738, "matched_fragments": 288, "total_fragments": 1298, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Mesoflavibacter zeaxanthinifaciens subsp. sabulilitoris", "strain": "strain=CECT 8597", "accession": "GCA_014191595.1", "taxid": 1520893, "species_taxid": 393060, "relation_to_type": "type", "validated": true, "ani": 77.6637, "matched_fragments": 287, "total_fragments": 1298, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Psychroserpens luteolus", "strain": "strain=XSD401", "accession": "GCA_021032705.1", "taxid": 2855840, "species_taxid": 2855840, "relation_to_type": "type", "validated": true, "ani": 77.3327, "matched_fragments": 180, "total_fragments": 1298, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000943565.1", "gtdb_species": "s__Tamlana_B sedimentorum", "ani": 100.0, "matched_fragments": 1294, "total_fragments": 1298, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Tamlana_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_000943555.1", "gtdb_species": "s__Tamlana_B nanhaiensis", "ani": 83.234, "matched_fragments": 785, "total_fragments": 1298, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Tamlana_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_900114265.1", "gtdb_species": "s__Flaviramulus basaltis", "ani": 78.9725, "matched_fragments": 486, "total_fragments": 1298, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Flaviramulus", "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_007997385.1", "gtdb_species": "s__Seonamhaeicola algicola", "ani": 78.9583, "matched_fragments": 471, "total_fragments": 1298, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Seonamhaeicola", "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_014202225.1", "gtdb_species": "s__Algibacter_B amylolyticus", "ani": 78.8584, "matched_fragments": 493, "total_fragments": 1298, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Algibacter_B", "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": 3, "status": "-" }, { "accession": "GCF_900112595.1", "gtdb_species": "s__Algibacter_B pectinivorans", "ani": 78.8348, "matched_fragments": 470, "total_fragments": 1298, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Algibacter_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_003143755.1", "gtdb_species": "s__Algibacter_B sp003143755", "ani": 78.5228, "matched_fragments": 417, "total_fragments": 1298, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Algibacter_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_000941055.1", "gtdb_species": "s__Siansivirga zeaxanthinifaciens", "ani": 78.4191, "matched_fragments": 380, "total_fragments": 1298, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Siansivirga", "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_900141715.1", "gtdb_species": "s__Arenitalea lutea", "ani": 78.4077, "matched_fragments": 410, "total_fragments": 1298, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Arenitalea", "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_009796825.1", "gtdb_species": "s__Algibacter sp009796825", "ani": 78.2974, "matched_fragments": 494, "total_fragments": 1298, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Algibacter", "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_000789235.1", "gtdb_species": "s__Wocania ichthyoenteri", "ani": 78.2818, "matched_fragments": 433, "total_fragments": 1298, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Wocania", "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_015355625.1", "gtdb_species": "s__Tamlana_A sp015355625", "ani": 78.2454, "matched_fragments": 413, "total_fragments": 1298, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Tamlana_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_018860245.1", "gtdb_species": "s__Tamlana_A agarivorans_A", "ani": 78.1851, "matched_fragments": 348, "total_fragments": 1298, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Tamlana_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_004341235.1", "gtdb_species": "s__Mariniflexile fucanivorans", "ani": 78.0884, "matched_fragments": 441, "total_fragments": 1298, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Mariniflexile", "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_000425645.1", "gtdb_species": "s__Gaetbulibacter saemankumensis", "ani": 77.6919, "matched_fragments": 303, "total_fragments": 1298, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Gaetbulibacter", "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_000348685.1", "gtdb_species": "s__Xanthomarina gelatinilytica", "ani": 77.654, "matched_fragments": 181, "total_fragments": 1298, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Xanthomarina", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.37", "min_intra_species_ani": "98.31", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.88", "num_clustered_genomes": 4, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.31, "cell_length": -0.023, "doubling_h": null, "growth_tmp": 30.0, "optimum_tmp": 28.75, "optimum_ph": 7.1, "genome_size": 3961353.0, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.0, "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": [ "Tamlana", "sedimentorum" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }