{ "type": "genome", "identifier": "GCF_000520975.1", "organism": "Aquimarina megaterium XH134", "title": "Aquimarina megaterium XH134", "description": "na", "data type": "Genome sequencing and assembly", "organization": "ocean university of China", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000520975.1", "bioproject": "PRJNA224116", "biosample": "SAMN02597431", "wgs_master": "JACB00000000.1", "refseq_category": "reference genome", "taxid": "1296416", "species_taxid": "1443666", "organism_name": "Aquimarina megaterium XH134", "infraspecific_name": "strain=XH134", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2014/01/16", "asm_name": "of Aquimarina megaterium", "asm_submitter": "ocean university of China", "gbrs_paired_asm": "GCA_000520975.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/520/975/GCF_000520975.1_of_Aquimarina_megaterium", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6206385", "genome_size_ungapped": "6206385", "gc_percent": "33.000000", "replicon_count": "0", "scaffold_count": "170", "contig_count": "170", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000520975.1-RS_2024_12_09", "annotation_date": "2024-12-09", "total_gene_count": "5444", "protein_coding_gene_count": "5374", "non_coding_gene_count": "47", "pubmed_id": "24030690" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2014-01-16", "dateModified": "2014-01-16", "datePublished": "2014-01-16", "_annotation": { "sample_count": 1, "sample_organism": [ "Aquimarina megaterium XH134" ], "sample_taxid": [ "1296416" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.734 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)": "6204974", "Number of Sequences": "151", "Longest Sequences (bp)": "549977", "N50 (bp)": "171549", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "32.9", "Number of CDSs": "5249", "Average Protein Length": "334.4", "Coding Ratio (%)": "84.9", "Number of rRNAs": "3", "Number of tRNAs": "40", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Aquimarina megaterium", "strain": "strain=XH134", "accession": "GCA_000520975.1", "taxid": 1443666, "species_taxid": 1443666, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2010, "total_fragments": 2014, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Aquimarina atlantica", "strain": "strain=22II-S11-z7", "accession": "GCA_000626715.1", "taxid": 1317122, "species_taxid": 1317122, "relation_to_type": "type", "validated": true, "ani": 92.2234, "matched_fragments": 1631, "total_fragments": 2014, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquimarina macrocephali", "strain": "strain=JAMB N27", "accession": "GCA_000520995.1", "taxid": 666563, "species_taxid": 666563, "relation_to_type": "type", "validated": true, "ani": 89.5611, "matched_fragments": 1521, "total_fragments": 2014, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquimarina sediminis", "strain": "strain=w01", "accession": "GCA_002895435.1", "taxid": 2070536, "species_taxid": 2070536, "relation_to_type": "type", "validated": true, "ani": 80.3643, "matched_fragments": 928, "total_fragments": 2014, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquimarina longa", "strain": "strain=SW024", "accession": "GCA_001401755.1", "taxid": 1080221, "species_taxid": 1080221, "relation_to_type": "type", "validated": true, "ani": 80.1264, "matched_fragments": 834, "total_fragments": 2014, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquimarina muelleri", "strain": "strain=DSM 19832", "accession": "GCA_000430665.1", "taxid": 279356, "species_taxid": 279356, "relation_to_type": "type", "validated": true, "ani": 80.0279, "matched_fragments": 809, "total_fragments": 2014, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquimarina aggregata", "strain": "strain=RZW4-3-2", "accession": "GCA_001632745.1", "taxid": 1642818, "species_taxid": 1642818, "relation_to_type": "type", "validated": true, "ani": 78.9636, "matched_fragments": 654, "total_fragments": 2014, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tenacibaculum todarodis", "strain": "strain=LPB0136", "accession": "GCA_001889045.1", "taxid": 1850252, "species_taxid": 1850252, "relation_to_type": "type", "validated": true, "ani": 76.3177, "matched_fragments": 110, "total_fragments": 2014, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pontimicrobium aquaticum", "strain": "strain=CAU 1491", "accession": "GCA_005047595.1", "taxid": 2565367, "species_taxid": 2565367, "relation_to_type": "type", "validated": true, "ani": 76.1832, "matched_fragments": 128, "total_fragments": 2014, "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": 76.0762, "matched_fragments": 122, "total_fragments": 2014, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Flavobacterium celericrescens", "strain": "strain=TWA-26", "accession": "GCA_011392075.1", "taxid": 2709780, "species_taxid": 2709780, "relation_to_type": "type", "validated": true, "ani": 75.9542, "matched_fragments": 76, "total_fragments": 2014, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000520975.1", "gtdb_species": "s__Aquimarina megaterium", "ani": 100.0, "matched_fragments": 2010, "total_fragments": 2014, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Aquimarina", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.79", "min_intra_species_ani": "98.77", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.92", "num_clustered_genomes": 4, "status": "conclusive" }, { "accession": "GCF_900312745.1", "gtdb_species": "s__Aquimarina sp900312745", "ani": 94.6429, "matched_fragments": 1679, "total_fragments": 2014, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Aquimarina", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.61", "min_intra_species_ani": "95.54", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.91", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_000626715.1", "gtdb_species": "s__Aquimarina atlantica", "ani": 92.2152, "matched_fragments": 1632, "total_fragments": 2014, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Aquimarina", "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_900299525.1", "gtdb_species": "s__Aquimarina sp900299525", "ani": 90.067, "matched_fragments": 1672, "total_fragments": 2014, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Aquimarina", "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_000520995.1", "gtdb_species": "s__Aquimarina macrocephali", "ani": 89.5558, "matched_fragments": 1522, "total_fragments": 2014, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Aquimarina", "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_002846555.1", "gtdb_species": "s__Aquimarina sp002846555", "ani": 87.6478, "matched_fragments": 1334, "total_fragments": 2014, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Aquimarina", "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": -0.503, "cell_length": 0.521, "doubling_h": null, "growth_tmp": 27.904, "optimum_tmp": 28.416, "optimum_ph": 7.25, "genome_size": 5187855.2, "gc_content": 31.955, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.857, "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": [ "Aquimarina", "megaterium", "XH134" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }