{ "type": "genome", "identifier": "GCF_008033385.1", "organism": "Algibacter pacificus", "title": "Algibacter pacificus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Institute of Oceanology, Chinese Academy of Sciences", "publication": [ {} ], "properties": { "assembly_accession": "GCF_008033385.1", "bioproject": "PRJNA224116", "biosample": "SAMN12386529", "wgs_master": "VOGY00000000.1", "refseq_category": "reference genome", "taxid": "2599389", "species_taxid": "2599389", "organism_name": "Algibacter pacificus", "infraspecific_name": "strain=H164", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/08/20", "asm_name": "ASM803338v1", "asm_submitter": "Institute of Oceanology, Chinese Academy of Sciences", "gbrs_paired_asm": "GCA_008033385.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/008/033/385/GCF_008033385.1_ASM803338v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4167837", "genome_size_ungapped": "4167827", "gc_percent": "33.000000", "replicon_count": "0", "scaffold_count": "56", "contig_count": "57", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_008033385.1-RS_2024_12_11", "annotation_date": "2024-12-11", "total_gene_count": "3501", "protein_coding_gene_count": "3417", "non_coding_gene_count": "49", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-08-20", "dateModified": "2019-08-20", "datePublished": "2019-08-20", "_annotation": { "sample_count": 1, "sample_organism": [ "Algibacter pacificus" ], "sample_taxid": [ "2599389" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Pacific Ocean: Caroline Seamounts" ], "sample_host_location_id": [], "data_size": "1.159 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)": "4167837", "Number of Sequences": "56", "Longest Sequences (bp)": "736302", "N50 (bp)": "321337", "Gap Ratio (%)": "0.000240", "GCcontent (%)": "33.2", "Number of CDSs": "3431", "Average Protein Length": "356.3", "Coding Ratio (%)": "88.0", "Number of rRNAs": "3", "Number of tRNAs": "42", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Algibacter pacificus", "strain": "strain=H164", "accession": "GCA_008033385.1", "taxid": 2599389, "species_taxid": 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79.1359, "matched_fragments": 532, "total_fragments": 1363, "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": 79.1296, "matched_fragments": 539, "total_fragments": 1363, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Algibacter pectinivorans", "strain": "strain=DSM 25730", "accession": "GCA_900112595.1", "taxid": 870482, "species_taxid": 870482, "relation_to_type": "type", "validated": true, "ani": 79.0159, "matched_fragments": 536, "total_fragments": 1363, "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": 78.774, "matched_fragments": 375, "total_fragments": 1363, "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": 77.9406, "matched_fragments": 335, "total_fragments": 1363, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lacinutrix mariniflava", "strain": "strain=AKS432", "accession": "GCA_001418015.1", "taxid": 342955, "species_taxid": 342955, "relation_to_type": "type", "validated": true, "ani": 77.8261, "matched_fragments": 282, "total_fragments": 1363, "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": 77.4614, "matched_fragments": 203, "total_fragments": 1363, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lacinutrix jangbogonensis", "strain": "strain=PAMC 27137", "accession": "GCA_000797445.1", "taxid": 1469557, "species_taxid": 1469557, "relation_to_type": "type", "validated": true, "ani": 77.4455, "matched_fragments": 255, "total_fragments": 1363, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aestuariivivens marinum", "strain": "strain=MT3-5-12", "accession": "GCA_022662175.1", "taxid": 2913555, "species_taxid": 2913555, "relation_to_type": "type", "validated": true, "ani": 77.3237, "matched_fragments": 230, "total_fragments": 1363, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Hyunsoonleella aquatilis", "strain": "strain=SJ7", "accession": "GCA_014270105.1", "taxid": 2762758, "species_taxid": 2762758, "relation_to_type": "type", "validated": true, "ani": 77.0929, "matched_fragments": 202, "total_fragments": 1363, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, 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"num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_009796825.1", "gtdb_species": "s__Algibacter sp009796825", "ani": 82.8772, "matched_fragments": 762, "total_fragments": 1363, "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": "GCA_900112395.1", "gtdb_species": "s__Algibacter lectus", "ani": 82.824, "matched_fragments": 759, "total_fragments": 1363, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Algibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.81", "min_intra_species_ani": "98.79", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.89", "num_clustered_genomes": 6, "status": "-" }, { 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78.8923, "matched_fragments": 454, "total_fragments": 1363, "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_001418015.1", "gtdb_species": "s__Lacinutrix mariniflava", "ani": 77.8286, "matched_fragments": 283, "total_fragments": 1363, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Lacinutrix", "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": -0.435, "cell_length": 0.366, "doubling_h": null, "growth_tmp": 25.0, "optimum_tmp": 25.888, "optimum_ph": 7.414, "genome_size": 4139669.333, "gc_content": 31.801, "coding_genes": 3262.667, "rRNA16S_genes": 2.0, "tRNA_genes": 40.0, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.625, "range_salinity": null, "facultative_respiration": 0.142, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.857, "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": [ "Algibacter", "pacificus" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }