{ "type": "genome", "identifier": "GCF_000242255.2", "organism": "Frateuria aurantia DSM 6220", "title": "Frateuria aurantia DSM 6220", "description": "na", "data type": "Genome sequencing and assembly", "organization": "JGI", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000242255.2", "bioproject": "PRJNA224116", "biosample": "SAMN02261415", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "767434", "species_taxid": "81475", "organism_name": "Frateuria aurantia DSM 6220", "infraspecific_name": "strain=DSM 6220", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2012/03/02", "asm_name": "ASM24225v3", "asm_submitter": "JGI", "gbrs_paired_asm": "GCA_000242255.3", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/242/255/GCF_000242255.2_ASM24225v3", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "3603458", "genome_size_ungapped": "3603458", "gc_percent": "63.500000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000242255.2-RS_2024_05_12", "annotation_date": "2024-05-12", "total_gene_count": "3258", "protein_coding_gene_count": "3130", "non_coding_gene_count": "90", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2012-03-02", "dateModified": "2012-03-02", "datePublished": "2012-03-02", "_annotation": { "sample_count": 1, "sample_organism": [ "Frateuria aurantia DSM 6220" ], "sample_taxid": [ "767434" ], "sample_host_organism": [ "Lilium auratum" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Japan" ], "sample_host_location_id": [], "data_size": "0.995 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)": "3603458", "Number of Sequences": "1", "Longest Sequences (bp)": "3603458", "N50 (bp)": "3603458", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "63.4", "Number of CDSs": "3199", "Average Protein Length": "326.0", "Coding Ratio (%)": "86.8", "Number of rRNAs": "12", "Number of tRNAs": "76", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Frateuria aurantia", "strain": "strain=DSM 6220", "accession": "GCA_000242255.3", "taxid": 81475, "species_taxid": 81475, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1199, "total_fragments": 1201, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Dyella amyloliquefaciens", "strain": "strain=DHC06", "accession": "GCA_004296575.1", "taxid": 1770545, "species_taxid": 1770545, "relation_to_type": "type", "validated": true, "ani": 78.7415, "matched_fragments": 304, "total_fragments": 1201, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dyella japonica", "strain": "strain=DSM 16301", "accession": "GCA_001010355.1", "taxid": 231455, "species_taxid": 231455, "relation_to_type": "type", "validated": true, "ani": 78.6867, "matched_fragments": 256, "total_fragments": 1201, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dyella solisilvae", "strain": "strain=DHG54", "accession": "GCA_003351225.1", "taxid": 1920168, "species_taxid": 1920168, "relation_to_type": "type", "validated": true, "ani": 78.5942, "matched_fragments": 326, "total_fragments": 1201, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dyella kyungheensis", "strain": "strain=THG-B117", "accession": "GCA_016905005.1", "taxid": 1242174, "species_taxid": 1242174, "relation_to_type": "type", "validated": true, "ani": 78.5567, "matched_fragments": 317, "total_fragments": 1201, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Frateuria terrea", "strain": "strain=DSM 26515", "accession": "GCA_900109025.1", "taxid": 529704, "species_taxid": 529704, "relation_to_type": "type", "validated": true, "ani": 78.518, "matched_fragments": 299, "total_fragments": 1201, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dyella telluris", "strain": "strain=G9", "accession": "GCA_014297575.1", "taxid": 2763498, "species_taxid": 2763498, "relation_to_type": "type", "validated": true, "ani": 78.4865, "matched_fragments": 336, "total_fragments": 1201, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Frateuria flava", "strain": "strain=MAH-13", "accession": "GCA_017837635.1", "taxid": 2821489, "species_taxid": 2821489, "relation_to_type": "type", "validated": true, "ani": 78.4661, "matched_fragments": 287, "total_fragments": 1201, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Frateuria terrea", "strain": "strain=CGMCC 1.7053", "accession": "GCA_900115705.1", "taxid": 529704, "species_taxid": 529704, "relation_to_type": "type", "validated": true, "ani": 78.4111, "matched_fragments": 297, "total_fragments": 1201, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dyella acidiphila", "strain": "strain=7MK23", "accession": "GCA_014863405.1", "taxid": 2775866, "species_taxid": 2775866, "relation_to_type": "type", "validated": true, "ani": 78.4002, "matched_fragments": 338, "total_fragments": 1201, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dyella mobilis", "strain": "strain=DHON07", "accession": "GCA_016904945.1", "taxid": 1849582, "species_taxid": 1849582, "relation_to_type": "type", "validated": true, "ani": 78.2652, "matched_fragments": 296, "total_fragments": 1201, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodanobacter spathiphylli", "strain": "strain=B39", "accession": "GCA_000264295.1", "taxid": 347483, "species_taxid": 347483, "relation_to_type": "type", "validated": true, "ani": 78.1875, "matched_fragments": 340, "total_fragments": 1201, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodanobacter fulvus", "strain": "strain=Jip2", "accession": "GCA_000264315.1", "taxid": 219571, "species_taxid": 219571, "relation_to_type": "type", "validated": true, "ani": 78.0409, "matched_fragments": 310, "total_fragments": 1201, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Lysobacter capsici", "strain": "strain=VKM B-2533", "accession": "GCA_014779555.2", "taxid": 435897, "species_taxid": 435897, "relation_to_type": "type", "validated": true, "ani": 77.2406, "matched_fragments": 218, "total_fragments": 1201, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Luteimonas weifangensis", "strain": "strain=WF-2", "accession": "GCA_003416885.1", "taxid": 2303539, "species_taxid": 2303539, "relation_to_type": "type", "validated": true, "ani": 77.1738, "matched_fragments": 171, "total_fragments": 1201, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000242255.2", "gtdb_species": "s__Frateuria aurantia", "ani": 100.0, "matched_fragments": 1200, "total_fragments": 1201, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Rhodanobacteraceae;g__Frateuria", "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_003201105.1", "gtdb_species": "s__Dyella jiangningensis_B", "ani": 78.7961, "matched_fragments": 332, "total_fragments": 1201, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Rhodanobacteraceae;g__Dyella", "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_900112865.1", "gtdb_species": "s__Dyella marensis", "ani": 78.6819, "matched_fragments": 358, "total_fragments": 1201, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Rhodanobacteraceae;g__Dyella", "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_003332825.1", "gtdb_species": "s__Dyella sp003332825", "ani": 78.5459, "matched_fragments": 345, "total_fragments": 1201, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Rhodanobacteraceae;g__Dyella", "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_014297575.1", "gtdb_species": "s__Dyella sp014297575", "ani": 78.5101, "matched_fragments": 335, "total_fragments": 1201, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Rhodanobacteraceae;g__Dyella", "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_003264855.1", "gtdb_species": "s__Dyella jiangningensis_C", "ani": 78.5055, "matched_fragments": 317, "total_fragments": 1201, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Rhodanobacteraceae;g__Dyella", "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_012275375.1", "gtdb_species": "s__Dyella sp012275375", "ani": 78.4998, "matched_fragments": 378, "total_fragments": 1201, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Rhodanobacteraceae;g__Dyella", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.64", "min_intra_species_ani": "95.58", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.90", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_001182895.1", "gtdb_species": "s__Frateuria_B defendens", "ani": 78.4849, "matched_fragments": 357, "total_fragments": 1201, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Rhodanobacteraceae;g__Frateuria_B", "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_006438785.1", "gtdb_species": "s__Rhodanobacter glycinis_A", "ani": 78.4373, "matched_fragments": 307, "total_fragments": 1201, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Rhodanobacteraceae;g__Rhodanobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.18", "min_intra_species_ani": "99.18", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_016586165.1", "gtdb_species": "s__Dyella sp016586165", "ani": 78.4234, "matched_fragments": 313, "total_fragments": 1201, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Rhodanobacteraceae;g__Dyella", "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_900115705.1", "gtdb_species": "s__Frateuria_A terrea", "ani": 78.4158, "matched_fragments": 297, "total_fragments": 1201, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Rhodanobacteraceae;g__Frateuria_A", "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": "GCA_002279065.1", "gtdb_species": "s__Dyella_A sp002279065", "ani": 78.4044, "matched_fragments": 319, "total_fragments": 1201, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Rhodanobacteraceae;g__Dyella_A", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCA_000632805.1", "gtdb_species": "s__Dyella jiangningensis", "ani": 78.3777, "matched_fragments": 328, "total_fragments": 1201, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Rhodanobacteraceae;g__Dyella", "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_014842975.1", "gtdb_species": "s__Rhodanobacter sp014842975", "ani": 78.3104, "matched_fragments": 334, "total_fragments": 1201, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Rhodanobacteraceae;g__Rhodanobacter", "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_002001175.1", "gtdb_species": "s__Rhodanobacter sp002001175", "ani": 78.3014, "matched_fragments": 299, "total_fragments": 1201, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Rhodanobacteraceae;g__Rhodanobacter", "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_900114495.1", "gtdb_species": "s__Dyella sp900114495", "ani": 78.2928, "matched_fragments": 278, "total_fragments": 1201, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Rhodanobacteraceae;g__Dyella", "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_013362045.1", "gtdb_species": "s__Frateuria_A sp013362045", "ani": 78.2076, "matched_fragments": 241, "total_fragments": 1201, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Rhodanobacteraceae;g__Frateuria_A", "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_001617365.1", "gtdb_species": "s__Rhodanobacter sp001617365", "ani": 78.1689, "matched_fragments": 332, "total_fragments": 1201, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Rhodanobacteraceae;g__Rhodanobacter", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.98", "min_intra_species_ani": "99.98", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.97", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000264315.1", "gtdb_species": "s__Rhodanobacter fulvus", "ani": 78.0629, "matched_fragments": 308, "total_fragments": 1201, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Xanthomonadales;f__Rhodanobacteraceae;g__Rhodanobacter", "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": -0.398, "cell_length": 0.439, "doubling_h": null, "growth_tmp": 26.5, "optimum_tmp": 30.0, "optimum_ph": 7.25, "genome_size": 3603458.5, "gc_content": 63.4, "coding_genes": 3112.0, "rRNA16S_genes": 4.0, "tRNA_genes": 74.0, "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": 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": [ "Frateuria", "aurantia", "DSM", "6220" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }