{ "type": "genome", "identifier": "GCF_019665765.1", "organism": "Deefgea tanakiae", "title": "Deefgea tanakiae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Kyunghee University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_019665765.1", "bioproject": "PRJNA224116", "biosample": "SAMN20703557", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "2865840", "species_taxid": "2865840", "organism_name": "Deefgea tanakiae", "infraspecific_name": "strain=D25", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/08/18", "asm_name": "ASM1966576v1", "asm_submitter": "Kyunghee University", "gbrs_paired_asm": "GCA_019665765.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/019/665/765/GCF_019665765.1_ASM1966576v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3557673", "genome_size_ungapped": "3557673", "gc_percent": "48.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_019665765.1-RS_2024_09_02", "annotation_date": "2024-09-02", "total_gene_count": "3340", "protein_coding_gene_count": "3211", "non_coding_gene_count": "105", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-08-18", "dateModified": "2021-08-18", "datePublished": "2021-08-18", "_annotation": { "sample_count": 1, "sample_organism": [ "Deefgea tanakiae" ], "sample_taxid": [ "2865840" ], "sample_host_organism": [ "Tanakia koreensis" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea" ], "sample_host_location_id": [], "data_size": "1.005 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)": "3557673", "Number of Sequences": "1", "Longest Sequences (bp)": "3557673", "N50 (bp)": "3557673", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "48.1", "Number of CDSs": "3240", "Average Protein Length": "319.6", "Coding Ratio (%)": "87.3", "Number of rRNAs": "21", "Number of tRNAs": "81", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Deefgea chitinilytica", "strain": "strain=LMG 24817", "accession": "GCA_016881405.1", "taxid": 570276, "species_taxid": 570276, "relation_to_type": "type", "validated": true, "ani": 83.5696, "matched_fragments": 825, "total_fragments": 1185, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Deefgea rivuli", "strain": "strain=DSM 18356", "accession": "GCA_000620145.1", "taxid": 400948, "species_taxid": 400948, "relation_to_type": "type", "validated": true, "ani": 81.8546, "matched_fragments": 745, "total_fragments": 1185, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Deefgea salmonis", "strain": "strain=H3-26", "accession": "GCA_020531905.1", "taxid": 2875502, "species_taxid": 2875502, "relation_to_type": "type", "validated": true, "ani": 80.0978, "matched_fragments": 553, "total_fragments": 1185, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinibacter fontanus", "strain": "strain=STM-7", "accession": "GCA_013423785.1", "taxid": 1737446, "species_taxid": 1737446, "relation_to_type": "type", "validated": true, "ani": 78.9152, "matched_fragments": 332, "total_fragments": 1185, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinibacter bivalviorum", "strain": "strain=2T18", "accession": "GCA_013403565.1", "taxid": 2739434, "species_taxid": 2739434, "relation_to_type": "type", "validated": true, "ani": 78.6901, "matched_fragments": 384, "total_fragments": 1185, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinibacter tainanensis", "strain": "strain=DSM 15459", "accession": "GCA_000429785.1", "taxid": 230667, "species_taxid": 230667, "relation_to_type": "type", "validated": true, "ani": 77.8583, "matched_fragments": 240, "total_fragments": 1185, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Silvimonas amylolytica", "strain": "strain=CGMCC 1.8860", "accession": "GCA_014645555.1", "taxid": 449663, "species_taxid": 449663, "relation_to_type": "type", "validated": true, "ani": 76.6275, "matched_fragments": 52, "total_fragments": 1185, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinilyticum piscinae", "strain": "strain=4Y14", "accession": "GCA_015223195.1", "taxid": 2866724, "species_taxid": 2866724, "relation_to_type": "type", "validated": true, "ani": 76.5782, "matched_fragments": 55, "total_fragments": 1185, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Chitinilyticum aquatile", "strain": "strain=DSM 21506", "accession": "GCA_000430805.1", "taxid": 362520, "species_taxid": 362520, "relation_to_type": "type", "validated": true, "ani": 75.8756, "matched_fragments": 67, "total_fragments": 1185, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_016881405.1", "gtdb_species": "s__Deefgea chitinilytica", "ani": 83.5696, "matched_fragments": 825, "total_fragments": 1185, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinibacteraceae;g__Deefgea", "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_000620145.1", "gtdb_species": "s__Deefgea rivuli", "ani": 81.845, "matched_fragments": 746, "total_fragments": 1185, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinibacteraceae;g__Deefgea", "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_013284055.1", "gtdb_species": "s__Deefgea sp013284055", "ani": 80.8038, "matched_fragments": 553, "total_fragments": 1185, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinibacteraceae;g__Deefgea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.22", "min_intra_species_ani": "95.22", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_013423785.1", "gtdb_species": "s__Chitinibacter fontanus", "ani": 78.7919, "matched_fragments": 334, "total_fragments": 1185, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinibacteraceae;g__Chitinibacter", "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_013403565.1", "gtdb_species": "s__Chitinibacter sp013403565", "ani": 78.6949, "matched_fragments": 385, "total_fragments": 1185, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinibacteraceae;g__Chitinibacter", "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_009760905.1", "gtdb_species": "s__Chitinibacter sp009760905", "ani": 78.4954, "matched_fragments": 322, "total_fragments": 1185, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinibacteraceae;g__Chitinibacter", "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_004194535.1", "gtdb_species": "s__Iodobacter fluviatilis_A", "ani": 78.1621, "matched_fragments": 155, "total_fragments": 1185, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinibacteraceae;g__Iodobacter", "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_000429785.1", "gtdb_species": "s__Chitinibacter tainanensis", "ani": 77.855, "matched_fragments": 239, "total_fragments": 1185, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinibacteraceae;g__Chitinibacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.34", "min_intra_species_ani": "96.34", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000969645.2", "gtdb_species": "s__Iodobacter sp000969645", "ani": 77.763, "matched_fragments": 158, "total_fragments": 1185, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinibacteraceae;g__Iodobacter", "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_015223195.1", "gtdb_species": "s__Chitinilyticum litopenaei_A", "ani": 76.539, "matched_fragments": 56, "total_fragments": 1185, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinibacteraceae;g__Chitinilyticum", "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_000430805.1", "gtdb_species": "s__Chitinilyticum aquatile", "ani": 75.8764, "matched_fragments": 67, "total_fragments": 1185, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Chitinibacteraceae;g__Chitinilyticum", "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": -0.133, "cell_length": 0.414, "doubling_h": null, "growth_tmp": 27.5, "optimum_tmp": 26.5, "optimum_ph": 7.225, "genome_size": 3713920.0, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 0.0, "sporulation": null, "motility": 1.0, "range_salinity": null, "facultative_respiration": 0.5, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.5, "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": [ "Deefgea", "tanakiae" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }