{ "type": "genome", "identifier": "GCF_014652435.1", "organism": "Undibacterium squillarum", "title": "Undibacterium squillarum", "description": "na", "data type": "Genome sequencing and assembly", "organization": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014652435.1", "bioproject": "PRJNA224116", "biosample": "SAMD00245618", "wgs_master": "BMYU00000000.1", "refseq_category": "reference genome", "taxid": "1131567", "species_taxid": "1131567", "organism_name": "Undibacterium squillarum", "infraspecific_name": "strain=KCTC 23917", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/09/12", "asm_name": "ASM1465243v1", "asm_submitter": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "gbrs_paired_asm": "GCA_014652435.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/652/435/GCF_014652435.1_ASM1465243v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4185104", "genome_size_ungapped": "4185104", "gc_percent": "52.500000", "replicon_count": "0", "scaffold_count": "20", "contig_count": "20", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014652435.1-RS_2024_09_02", "annotation_date": "2024-09-02", "total_gene_count": "3734", "protein_coding_gene_count": "3649", "non_coding_gene_count": "67", "pubmed_id": "30832757" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-09-12", "dateModified": "2020-09-12", "datePublished": "2020-09-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Undibacterium squillarum" ], "sample_taxid": [ "1131567" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "not applicable" ], "sample_host_location_id": [], "data_size": "1.178 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)": "4185104", "Number of Sequences": "20", "Longest Sequences (bp)": "995374", "N50 (bp)": "455598", "Gap Ratio (%)": "0.000072", "GCcontent (%)": "52.4", "Number of CDSs": "3671", "Average Protein Length": "331.3", "Coding Ratio (%)": "87.2", "Number of rRNAs": "1", "Number of tRNAs": "58", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Undibacterium squillarum", "strain": "strain=KCTC 23917", "accession": "GCA_014652435.1", "taxid": 1131567, "species_taxid": 1131567, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1385, "total_fragments": 1385, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Undibacterium luofuense", "strain": "strain=LFS511W", "accession": "GCA_018139685.1", "taxid": 2828733, "species_taxid": 2828733, "relation_to_type": "type", "validated": true, "ani": 88.5937, "matched_fragments": 1204, "total_fragments": 1385, "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": 78.5311, "matched_fragments": 448, "total_fragments": 1385, "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": 78.372, "matched_fragments": 430, "total_fragments": 1385, "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": 78.3665, "matched_fragments": 356, "total_fragments": 1385, "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": 78.3332, "matched_fragments": 404, "total_fragments": 1385, "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": 78.2568, "matched_fragments": 322, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Undibacterium umbellatum", "strain": "strain=NL8W", "accession": "GCA_014284125.1", "taxid": 2762300, "species_taxid": 2762300, "relation_to_type": "type", "validated": true, "ani": 77.2988, "matched_fragments": 285, "total_fragments": 1385, "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": 76.3717, "matched_fragments": 136, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Noviherbaspirillum cavernae", "strain": "strain=K2R10-39", "accession": "GCA_003590875.1", "taxid": 2320862, "species_taxid": 2320862, "relation_to_type": "type", "validated": true, "ani": 76.3639, "matched_fragments": 122, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Duganella phyllosphaerae", "strain": "strain=T54", "accession": "GCA_001758785.1", "taxid": 762836, "species_taxid": 762836, "relation_to_type": "type", "validated": true, "ani": 76.3444, "matched_fragments": 103, "total_fragments": 1385, "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": 76.1193, "matched_fragments": 100, "total_fragments": 1385, "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": 76.1163, "matched_fragments": 132, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudoduganella namucuonensis", "strain": "strain=CGMCC 1.11014", "accession": "GCA_900116645.1", "taxid": 1035707, "species_taxid": 1035707, "relation_to_type": "type", "validated": true, "ani": 76.0861, "matched_fragments": 97, "total_fragments": 1385, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014652435.1", "gtdb_species": "s__Undibacterium squillarum", "ani": 100.0, "matched_fragments": 1385, "total_fragments": 1385, "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_018139685.1", "gtdb_species": "s__Undibacterium sp018139685", "ani": 88.5914, "matched_fragments": 1204, "total_fragments": 1385, "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": 78.5311, "matched_fragments": 448, "total_fragments": 1385, "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": 78.3901, "matched_fragments": 428, "total_fragments": 1385, "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_014284195.1", "gtdb_species": "s__Undibacterium sp014284195", "ani": 78.3665, "matched_fragments": 356, "total_fragments": 1385, "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": 78.3423, "matched_fragments": 403, "total_fragments": 1385, "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_014699135.1", "gtdb_species": "s__Undibacterium aquatile", "ani": 78.0508, "matched_fragments": 338, "total_fragments": 1385, "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": "GCA_016196925.1", "gtdb_species": "s__Undibacterium sp016196925", "ani": 77.5668, "matched_fragments": 247, "total_fragments": 1385, "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_014284125.1", "gtdb_species": "s__Undibacterium sp014284125", "ani": 77.3009, "matched_fragments": 285, "total_fragments": 1385, "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_003591035.1", "gtdb_species": "s__Noviherbaspirillum sp003591035", "ani": 76.3717, "matched_fragments": 136, "total_fragments": 1385, "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_003590875.1", "gtdb_species": "s__Noviherbaspirillum sp003590875", "ani": 76.3639, "matched_fragments": 122, "total_fragments": 1385, "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_003719535.1", "gtdb_species": "s__Massilia aurea_A", "ani": 76.2177, "matched_fragments": 75, "total_fragments": 1385, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Burkholderiaceae;g__Massilia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.87", "min_intra_species_ani": "95.87", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_001425265.1", "gtdb_species": "s__Pseudoduganella sp001425265", "ani": 76.1129, "matched_fragments": 124, "total_fragments": 1385, "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": 25.0, "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", "squillarum" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }