{ "type": "genome", "identifier": "GCF_011762185.1", "organism": "Dyadobacter arcticus", "title": "Dyadobacter arcticus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_011762185.1", "bioproject": "PRJNA224116", "biosample": "SAMN12025107", "wgs_master": "JAASQJ000000000.1", "refseq_category": "reference genome", "taxid": "1078754", "species_taxid": "1078754", "organism_name": "Dyadobacter arcticus", "infraspecific_name": "strain=DSM 102865", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/03/27", "asm_name": "ASM1176218v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_011762185.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/011/762/185/GCF_011762185.1_ASM1176218v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6043780", "genome_size_ungapped": "6043690", "gc_percent": "44.000000", "replicon_count": "0", "scaffold_count": "12", "contig_count": "12", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_011762185.1-RS_2024_09_16", "annotation_date": "2024-09-16", "total_gene_count": "5250", "protein_coding_gene_count": "5183", "non_coding_gene_count": "47", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-03-27", "dateModified": "2020-03-27", "datePublished": "2020-03-27", "_annotation": { "sample_count": 1, "sample_organism": [ "Dyadobacter arcticus" ], "sample_taxid": [ "1078754" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.721 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)": "6043780", "Number of Sequences": "12", "Longest Sequences (bp)": "1731509", "N50 (bp)": "1328140", "Gap Ratio (%)": "0.001489", "GCcontent (%)": "43.9", "Number of CDSs": "5128", "Average Protein Length": "351.1", "Coding Ratio (%)": "89.4", "Number of rRNAs": "2", "Number of tRNAs": "38", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Dyadobacter arcticus", "strain": "strain=DSM 102865", "accession": "GCA_011762185.1", "taxid": 1078754, "species_taxid": 1078754, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2010, "total_fragments": 2010, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Dyadobacter luticola", "strain": "strain=T17", "accession": "GCA_005860805.1", "taxid": 1979387, "species_taxid": 1979387, "relation_to_type": "type", "validated": true, "ani": 78.6668, "matched_fragments": 762, "total_fragments": 2010, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dyadobacter psychrophilus", "strain": "strain=DSM 22270", "accession": "GCA_900167945.1", "taxid": 651661, "species_taxid": 651661, "relation_to_type": "type", "validated": true, "ani": 78.2313, "matched_fragments": 579, "total_fragments": 2010, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dyadobacter alkalitolerans", "strain": "strain=DSM 23607", "accession": "GCA_000428845.1", "taxid": 492736, "species_taxid": 492736, "relation_to_type": "type", "validated": true, "ani": 78.1636, "matched_fragments": 539, "total_fragments": 2010, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dyadobacter crusticola", "strain": "strain=DSM 16708", "accession": "GCA_000701505.1", "taxid": 292407, "species_taxid": 292407, "relation_to_type": "type", "validated": true, "ani": 78.051, "matched_fragments": 459, "total_fragments": 2010, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dyadobacter bucti", "strain": "strain=QTA69", "accession": "GCA_005869225.1", "taxid": 2572203, "species_taxid": 2572203, "relation_to_type": "type", "validated": true, "ani": 77.9558, "matched_fragments": 460, "total_fragments": 2010, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dyadobacter flavalbus", "strain": "strain=NS28", "accession": "GCA_006149045.1", "taxid": 2579942, "species_taxid": 2579942, "relation_to_type": "type", "validated": true, "ani": 77.6943, "matched_fragments": 414, "total_fragments": 2010, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dyadobacter fermentans", "strain": "strain=DSM 18053", "accession": "GCA_000023125.1", "taxid": 94254, "species_taxid": 94254, "relation_to_type": "type", "validated": true, "ani": 77.6846, "matched_fragments": 395, "total_fragments": 2010, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dyadobacter soli", "strain": "strain=DSM 25329", "accession": "GCA_900101885.1", "taxid": 659014, "species_taxid": 659014, "relation_to_type": "type", "validated": true, "ani": 77.6162, "matched_fragments": 441, "total_fragments": 2010, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dyadobacter sediminis", "strain": "strain=CGMCC 1.12895", "accession": "GCA_014640015.1", "taxid": 1493691, "species_taxid": 1493691, "relation_to_type": "type", "validated": true, "ani": 77.5369, "matched_fragments": 423, "total_fragments": 2010, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dyadobacter koreensis", "strain": "strain=DSM 19938", "accession": "GCA_900108855.1", "taxid": 408657, "species_taxid": 408657, "relation_to_type": "type", "validated": true, "ani": 77.0084, "matched_fragments": 272, "total_fragments": 2010, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_011762185.1", "gtdb_species": "s__Dyadobacter arcticus", "ani": 100.0, "matched_fragments": 2010, "total_fragments": 2010, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Spirosomaceae;g__Dyadobacter", "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_005860805.1", "gtdb_species": "s__Dyadobacter luticola", "ani": 78.6584, "matched_fragments": 766, "total_fragments": 2010, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Spirosomaceae;g__Dyadobacter", "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_900167945.1", "gtdb_species": "s__Dyadobacter psychrophilus", "ani": 78.2191, "matched_fragments": 581, "total_fragments": 2010, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Spirosomaceae;g__Dyadobacter", "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_907165045.1", "gtdb_species": "s__Dyadobacter sp907165045", "ani": 78.2138, "matched_fragments": 515, "total_fragments": 2010, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Spirosomaceae;g__Dyadobacter", "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_000428845.1", "gtdb_species": "s__Dyadobacter alkalitolerans", "ani": 78.1667, "matched_fragments": 539, "total_fragments": 2010, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Spirosomaceae;g__Dyadobacter", "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_000701505.1", "gtdb_species": "s__Dyadobacter crusticola", "ani": 78.049, "matched_fragments": 455, "total_fragments": 2010, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Spirosomaceae;g__Dyadobacter", "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_008369915.1", "gtdb_species": "s__Dyadobacter sp008369915", "ani": 77.9791, "matched_fragments": 504, "total_fragments": 2010, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Spirosomaceae;g__Dyadobacter", "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_005869225.1", "gtdb_species": "s__Dyadobacter bucti", "ani": 77.9627, "matched_fragments": 459, "total_fragments": 2010, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Spirosomaceae;g__Dyadobacter", "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_001424405.1", "gtdb_species": "s__Dyadobacter sp001424405", "ani": 77.8925, "matched_fragments": 450, "total_fragments": 2010, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Spirosomaceae;g__Dyadobacter", "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_000023125.1", "gtdb_species": "s__Dyadobacter fermentans", "ani": 77.6911, "matched_fragments": 393, "total_fragments": 2010, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Spirosomaceae;g__Dyadobacter", "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_006149045.1", "gtdb_species": "s__Dyadobacter flavalbus", "ani": 77.6882, "matched_fragments": 414, "total_fragments": 2010, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Spirosomaceae;g__Dyadobacter", "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_005860765.1", "gtdb_species": "s__Dyadobacter sediminis", "ani": 77.55, "matched_fragments": 424, "total_fragments": 2010, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Spirosomaceae;g__Dyadobacter", "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_900108855.1", "gtdb_species": "s__Dyadobacter koreensis", "ani": 77.0084, "matched_fragments": 272, "total_fragments": 2010, "gtdb_taxonomy": "d__Bacteria;p__Bacteroidota;c__Bacteroidia;o__Cytophagales;f__Spirosomaceae;g__Dyadobacter", "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": -0.146, "cell_length": 0.32, "doubling_h": null, "growth_tmp": 20.0, "optimum_tmp": 25.0, "optimum_ph": 6.968, "genome_size": 7126230.0, "gc_content": 49.766, "coding_genes": 5709.667, "rRNA16S_genes": 4.0, "tRNA_genes": 38.0, "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": 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": [ "Dyadobacter", "arcticus" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }