{ "type": "genome", "identifier": "GCF_000430645.1", "organism": "Aquimarina latercula DSM 2041", "title": "Aquimarina latercula DSM 2041", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000430645.1", "bioproject": "PRJNA224116", "biosample": "SAMN02440808", "wgs_master": "AUMK00000000.1", "refseq_category": "reference genome", "taxid": "1121006", "species_taxid": "987", "organism_name": "Aquimarina latercula DSM 2041", "infraspecific_name": "strain=DSM 2041", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2013/07/16", "asm_name": "ASM43064v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_000430645.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/430/645/GCF_000430645.1_ASM43064v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6245252", "genome_size_ungapped": "6243493", "gc_percent": "32.000000", "replicon_count": "0", "scaffold_count": "28", "contig_count": "31", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000430645.1-RS_2024_05_02", "annotation_date": "2024-05-02", "total_gene_count": "5546", "protein_coding_gene_count": "5465", "non_coding_gene_count": "62", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2013-07-16", "dateModified": "2013-07-16", "datePublished": "2013-07-16", "_annotation": { "sample_count": 1, "sample_organism": [ "Aquimarina latercula DSM 2041" ], "sample_taxid": [ "1121006" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA" ], "sample_host_location_id": [], "data_size": "1.736 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)": "6245252", "Number of Sequences": "28", "Longest Sequences (bp)": "1535763", "N50 (bp)": "430189", "Gap Ratio (%)": "0.028165", "GCcontent (%)": "32.2", "Number of CDSs": "5456", "Average Protein Length": "336.9", "Coding Ratio (%)": "88.3", "Number of rRNAs": "6", "Number of tRNAs": "53", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Aquimarina latercula", "strain": "strain=DSM 2041", "accession": "GCA_000430645.1", "taxid": 987, "species_taxid": 987, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2060, "total_fragments": 2064, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Aquimarina amphilecti", "strain": "strain=DSM 25232", "accession": "GCA_900109375.1", "taxid": 1038014, "species_taxid": 1038014, "relation_to_type": "type", "validated": true, "ani": 88.2242, "matched_fragments": 1527, "total_fragments": 2064, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquimarina mytili", "strain": "strain=KCTC 23302", "accession": "GCA_016735115.1", "taxid": 874423, "species_taxid": 874423, "relation_to_type": "type", "validated": true, "ani": 78.3131, "matched_fragments": 492, "total_fragments": 2064, "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": 78.2431, "matched_fragments": 493, "total_fragments": 2064, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquimarina megaterium", "strain": "strain=XH134", "accession": "GCA_000520975.1", "taxid": 1443666, "species_taxid": 1443666, "relation_to_type": "type", "validated": true, "ani": 78.1867, "matched_fragments": 544, "total_fragments": 2064, "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": 78.1669, "matched_fragments": 552, "total_fragments": 2064, "ani_threshold": 95, "status": "below_threshold" }, { "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": 78.1025, "matched_fragments": 492, "total_fragments": 2064, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aquimarina muelleri", "strain": "strain=KCTC 12285", "accession": "GCA_014651355.1", "taxid": 279356, "species_taxid": 279356, "relation_to_type": "type", "validated": true, "ani": 78.0946, "matched_fragments": 481, "total_fragments": 2064, "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": 78.0442, "matched_fragments": 480, "total_fragments": 2064, "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": 77.995, "matched_fragments": 569, "total_fragments": 2064, "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": 77.8247, "matched_fragments": 487, "total_fragments": 2064, "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": 76.4755, "matched_fragments": 141, "total_fragments": 2064, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tenacibaculum lutimaris", "strain": "strain=DSM 16505", "accession": "GCA_003610735.1", "taxid": 285258, "species_taxid": 285258, "relation_to_type": "type", "validated": true, "ani": 76.4492, "matched_fragments": 122, "total_fragments": 2064, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Tenacibaculum haliotis", "strain": "strain=KCTC 52419", "accession": "GCA_025215075.1", "taxid": 1888914, "species_taxid": 1888914, "relation_to_type": "type", "validated": true, "ani": 76.3674, "matched_fragments": 127, "total_fragments": 2064, "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": 76.2307, "matched_fragments": 131, "total_fragments": 2064, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Polaribacter undariae", "strain": "strain=KCTC 42175", "accession": "GCA_024918935.1", "taxid": 1574269, "species_taxid": 1574269, "relation_to_type": "type", "validated": true, "ani": 75.9732, "matched_fragments": 143, "total_fragments": 2064, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Abyssalbus ytuae", "strain": "strain=MT3330", "accession": "GCA_022807975.1", "taxid": 2926907, "species_taxid": 2926907, "relation_to_type": "type", "validated": true, "ani": 75.8456, "matched_fragments": 95, "total_fragments": 2064, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000430645.1", "gtdb_species": "s__Aquimarina latercula", "ani": 100.0, "matched_fragments": 2059, "total_fragments": 2064, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Aquimarina", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.44", "min_intra_species_ani": "98.41", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.92", "num_clustered_genomes": 4, "status": "conclusive" }, { "accession": "GCF_900299505.1", "gtdb_species": "s__Aquimarina sp900299505", "ani": 94.2185, "matched_fragments": 1558, "total_fragments": 2064, "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_900109375.1", "gtdb_species": "s__Aquimarina amphilecti", "ani": 88.2379, "matched_fragments": 1525, "total_fragments": 2064, "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_003443675.1", "gtdb_species": "s__Aquimarina sp003443675", "ani": 81.8531, "matched_fragments": 1202, "total_fragments": 2064, "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": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_008370685.1", "gtdb_species": "s__Aquimarina sp008370685", "ani": 78.6654, "matched_fragments": 666, "total_fragments": 2064, "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_018100805.1", "gtdb_species": "s__Aquimarina sp018100805", "ani": 78.4885, "matched_fragments": 595, "total_fragments": 2064, "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_900312815.1", "gtdb_species": "s__Aquimarina sp900312815", "ani": 78.1222, "matched_fragments": 516, "total_fragments": 2064, "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_000430665.1", "gtdb_species": "s__Aquimarina muelleri", "ani": 78.0368, "matched_fragments": 481, "total_fragments": 2064, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Aquimarina", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.98", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900299535.1", "gtdb_species": "s__Aquimarina sp900299535", "ani": 78.005, "matched_fragments": 438, "total_fragments": 2064, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Aquimarina", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.11", "min_intra_species_ani": "95.11", "mean_intra_species_af": "0.81", "min_intra_species_af": "0.81", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003610735.1", "gtdb_species": "s__Tenacibaculum lutimaris", "ani": 76.4486, "matched_fragments": 122, "total_fragments": 2064, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Tenacibaculum", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.15", "min_intra_species_ani": "97.15", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_013003655.1", "gtdb_species": "s__Winogradskyella sp013003655", "ani": 76.1504, "matched_fragments": 67, "total_fragments": 2064, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Flavobacteriales;f__Flavobacteriaceae;g__Winogradskyella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.63", "min_intra_species_ani": "98.32", "mean_intra_species_af": "0.72", "min_intra_species_af": "0.67", "num_clustered_genomes": 5, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.398, "cell_length": 0.322, "doubling_h": null, "growth_tmp": 26.333, "optimum_tmp": 28.416, "optimum_ph": 7.25, "genome_size": 6244372.5, "gc_content": 32.2, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "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", "latercula", "DSM", "2041" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }