{ "type": "genome", "identifier": "GCF_018139685.1", "organism": "Undibacterium luofuense", "title": "Undibacterium luofuense", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Guangdong Institute of Microbiology", "publication": [ {} ], "properties": { "assembly_accession": "GCF_018139685.1", "bioproject": "PRJNA224116", "biosample": "SAMN18780208", "wgs_master": "JAGSPN000000000.1", "refseq_category": "reference genome", "taxid": "2828733", "species_taxid": "2828733", "organism_name": "Undibacterium luofuense", "infraspecific_name": "strain=LFS511W", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/04/25", "asm_name": "ASM1813968v1", "asm_submitter": "Guangdong Institute of Microbiology", "gbrs_paired_asm": "GCA_018139685.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/018/139/685/GCF_018139685.1_ASM1813968v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4559151", "genome_size_ungapped": "4559151", "gc_percent": "52.000000", "replicon_count": "0", "scaffold_count": "719", "contig_count": "719", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_018139685.1-RS_2024_08_05", "annotation_date": "2024-08-05", "total_gene_count": "4489", "protein_coding_gene_count": "4183", "non_coding_gene_count": "76", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-04-25", "dateModified": "2021-04-25", "datePublished": "2021-04-25", "_annotation": { "sample_count": 1, "sample_organism": [ "Undibacterium luofuense" ], "sample_taxid": [ "2828733" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Guangdong" ], "sample_host_location_id": [], "data_size": "1.305 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 2.08, "strain_heterogeneity": 66.67, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "4559151", "Number of Sequences": "719", "Longest Sequences (bp)": "778215", "N50 (bp)": "258085", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "51.9", "Number of CDSs": "3761", "Average Protein Length": "329.7", "Coding Ratio (%)": "81.6", "Number of rRNAs": "4", "Number of tRNAs": "60", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Undibacterium luofuense", "strain": "strain=LFS511W", "accession": "GCA_018139685.1", "taxid": 2828733, "species_taxid": 2828733, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1415, "total_fragments": 1417, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Undibacterium squillarum", "strain": "strain=KCTC 23917", "accession": "GCA_014652435.1", "taxid": 1131567, "species_taxid": 1131567, "relation_to_type": "type", "validated": true, "ani": 88.5451, "matched_fragments": 1197, "total_fragments": 1417, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Undibacterium crateris", "strain": "strain=B2R-29", "accession": "GCA_010078235.1", "taxid": 2528175, "species_taxid": 2528175, "relation_to_type": "type", "validated": true, "ani": 78.6442, "matched_fragments": 447, "total_fragments": 1417, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Undibacterium curvum", "strain": "strain=CY22W", "accession": "GCA_014284235.1", "taxid": 2762294, "species_taxid": 2762294, "relation_to_type": "type", "validated": true, "ani": 78.5703, "matched_fragments": 455, "total_fragments": 1417, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Undibacterium rugosum", "strain": "strain=CY7W", "accession": "GCA_014284365.1", "taxid": 2762291, "species_taxid": 2762291, "relation_to_type": "type", "validated": true, "ani": 78.5061, "matched_fragments": 410, "total_fragments": 1417, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Undibacterium griseum", "strain": "strain=FT31W", "accession": "GCA_014284195.1", "taxid": 2762295, "species_taxid": 2762295, "relation_to_type": "type", "validated": true, "ani": 78.3008, "matched_fragments": 368, "total_fragments": 1417, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Undibacterium oligocarboniphilum", "strain": "strain=EM 1", "accession": "GCA_013377855.1", "taxid": 666702, "species_taxid": 666702, "relation_to_type": "type", "validated": true, "ani": 78.1813, "matched_fragments": 344, "total_fragments": 1417, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Undibacterium nitidum", "strain": "strain=LX22W", "accession": "GCA_014284155.1", "taxid": 2762298, "species_taxid": 2762298, "relation_to_type": "type", "validated": true, "ani": 77.5955, "matched_fragments": 115, "total_fragments": 1417, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Undibacterium terreum", "strain": "strain=CGMCC 1.10998", "accession": "GCA_014636315.1", "taxid": 1224302, "species_taxid": 1224302, "relation_to_type": "type", "validated": true, "ani": 77.4082, "matched_fragments": 238, "total_fragments": 1417, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Noviherbaspirillum saxi", "strain": "strain=K1R23-30", "accession": "GCA_003591035.1", "taxid": 2320863, "species_taxid": 2320863, "relation_to_type": "type", "validated": true, "ani": 76.6604, "matched_fragments": 140, "total_fragments": 1417, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoduganella violacea", "strain": "strain=CECT 8897", "accession": "GCA_014191875.1", "taxid": 1715466, "species_taxid": 1715466, "relation_to_type": "type", "validated": true, "ani": 76.5453, "matched_fragments": 132, "total_fragments": 1417, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia cavernae", "strain": "strain=K1S02-61", "accession": "GCA_003590855.1", "taxid": 2320864, "species_taxid": 2320864, "relation_to_type": "type", "validated": true, "ani": 76.5029, "matched_fragments": 101, "total_fragments": 1417, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Duganella aceris", "strain": "strain=SAP-35", "accession": "GCA_011090165.1", "taxid": 2703883, "species_taxid": 2703883, "relation_to_type": "type", "validated": true, "ani": 76.3276, "matched_fragments": 116, "total_fragments": 1417, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Paraburkholderia azotifigens", "strain": "strain=NF 2-5-3", "accession": "GCA_007995085.1", "taxid": 2057004, "species_taxid": 2057004, "relation_to_type": "type", "validated": true, "ani": 76.0085, "matched_fragments": 51, "total_fragments": 1417, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Massilia agri", "strain": "strain=JCM 31661", "accession": "GCA_024753255.1", "taxid": 1886785, "species_taxid": 1886785, "relation_to_type": "type", "validated": true, "ani": 75.9748, "matched_fragments": 82, "total_fragments": 1417, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 2.08, "strain_heterogeneity": 66.67 }, "gtdb_result": [ { "accession": "GCF_018139685.1", "gtdb_species": "s__Undibacterium sp018139685", "ani": 100.0, "matched_fragments": 1415, "total_fragments": 1417, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Undibacterium", "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_014652435.1", "gtdb_species": "s__Undibacterium squillarum", "ani": 88.5504, "matched_fragments": 1196, "total_fragments": 1417, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Undibacterium", "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_010078235.1", "gtdb_species": "s__Undibacterium crateris", "ani": 78.6424, "matched_fragments": 446, "total_fragments": 1417, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Undibacterium", "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_014284235.1", "gtdb_species": "s__Undibacterium sp014284235", "ani": 78.5699, "matched_fragments": 454, "total_fragments": 1417, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Undibacterium", "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_014284365.1", "gtdb_species": "s__Undibacterium sp014284365", "ani": 78.5005, "matched_fragments": 409, "total_fragments": 1417, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Undibacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.07", "min_intra_species_ani": "99.07", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_014284195.1", "gtdb_species": "s__Undibacterium sp014284195", "ani": 78.3162, "matched_fragments": 369, "total_fragments": 1417, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Undibacterium", "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_013377855.1", "gtdb_species": "s__Undibacterium oligocarboniphilum", "ani": 78.197, "matched_fragments": 342, "total_fragments": 1417, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Undibacterium", "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_014699135.1", "gtdb_species": "s__Undibacterium aquatile", "ani": 78.1637, "matched_fragments": 338, "total_fragments": 1417, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Undibacterium", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.61", "min_intra_species_ani": "96.29", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_009937955.1", "gtdb_species": "s__Undibacterium sp009937955", "ani": 77.6707, "matched_fragments": 273, "total_fragments": 1417, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Undibacterium", "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_014636315.1", "gtdb_species": "s__Undibacterium terreum", "ani": 77.4322, "matched_fragments": 236, "total_fragments": 1417, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Undibacterium", "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_002257565.1", "gtdb_species": "s__Herbaspirillum sp002257565", "ani": 77.2371, "matched_fragments": 136, "total_fragments": 1417, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Herbaspirillum", "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_000013625.1", "gtdb_species": "s__Herminiimonas sp000013625", "ani": 77.019, "matched_fragments": 152, "total_fragments": 1417, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Herminiimonas", "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_014192645.1", "gtdb_species": "s__Herbaspirillum sp014192645", "ani": 76.8393, "matched_fragments": 113, "total_fragments": 1417, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Herbaspirillum", "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_003591035.1", "gtdb_species": "s__Noviherbaspirillum sp003591035", "ani": 76.6749, "matched_fragments": 139, "total_fragments": 1417, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Noviherbaspirillum", "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_014191875.1", "gtdb_species": "s__Pseudoduganella violacea", "ani": 76.5048, "matched_fragments": 132, "total_fragments": 1417, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Pseudoduganella", "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_013369485.1", "gtdb_species": "s__Pseudoduganella sp013369485", "ani": 76.2954, "matched_fragments": 140, "total_fragments": 1417, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Pseudoduganella", "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": -0.379, "cell_length": 0.249, "doubling_h": null, "growth_tmp": 26.333, "optimum_tmp": null, "optimum_ph": 6.5, "genome_size": null, "gc_content": null, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 0.0, "sporulation": 0.0, "motility": 0.5, "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": [ "Undibacterium", "luofuense" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }