{ "type": "genome", "identifier": "GCF_012927165.1", "organism": "Zoogloea dura", "title": "Zoogloea dura", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Kyonggi University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_012927165.1", "bioproject": "PRJNA224116", "biosample": "SAMN14642252", "wgs_master": "JABBGA000000000.1", "refseq_category": "reference genome", "taxid": "2728840", "species_taxid": "2728840", "organism_name": "Zoogloea dura", "infraspecific_name": "strain=G-4-1-14", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/04/28", "asm_name": "ASM1292716v1", "asm_submitter": "Kyonggi University", "gbrs_paired_asm": "GCA_012927165.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/012/927/165/GCF_012927165.1_ASM1292716v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5830284", "genome_size_ungapped": "5830284", "gc_percent": "66.000000", "replicon_count": "0", "scaffold_count": "83", "contig_count": "83", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_012927165.1-RS_2024_12_11", "annotation_date": "2024-12-11", "total_gene_count": "5257", "protein_coding_gene_count": "5129", "non_coding_gene_count": "73", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-04-28", "dateModified": "2020-04-28", "datePublished": "2020-04-28", "_annotation": { "sample_count": 1, "sample_organism": [ "Zoogloea dura" ], "sample_taxid": [ "2728840" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea: Suwon" ], "sample_host_location_id": [], "data_size": "1.606 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)": "5830284", "Number of Sequences": "83", "Longest Sequences (bp)": "665169", "N50 (bp)": "197990", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "65.9", "Number of CDSs": "5075", "Average Protein Length": "342.6", "Coding Ratio (%)": "89.5", "Number of rRNAs": "8", "Number of tRNAs": "65", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Zoogloea dura", "strain": "strain=G-4-1-14", "accession": "GCA_012927165.1", "taxid": 2728840, "species_taxid": 2728840, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1896, "total_fragments": 1900, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Zoogloea oleivorans", "strain": "strain=Buc", "accession": "GCA_008107625.1", "taxid": 1552750, "species_taxid": 1552750, "relation_to_type": "type", "validated": true, "ani": 83.8846, "matched_fragments": 1094, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Zoogloea ramigera", "strain": "strain=NBRC 15342", "accession": "GCA_006539865.1", "taxid": 350, "species_taxid": 350, "relation_to_type": "type", "validated": true, "ani": 83.406, "matched_fragments": 884, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thauera phenylacetica", "strain": "strain=B4P", "accession": "GCA_000310225.1", "taxid": 164400, "species_taxid": 164400, "relation_to_type": "type", "validated": true, "ani": 79.7708, "matched_fragments": 513, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thauera butanivorans", "strain": "strain=NBRC 103042", "accession": "GCA_001591165.1", "taxid": 86174, "species_taxid": 86174, "relation_to_type": "type", "validated": true, "ani": 79.6592, "matched_fragments": 550, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thauera aminoaromatica", "strain": "strain=S2", "accession": "GCA_000310185.1", "taxid": 164330, "species_taxid": 164330, "relation_to_type": "type", "validated": true, "ani": 79.64, "matched_fragments": 533, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aromatoleum toluolicum", "strain": "strain=T", "accession": "GCA_012911005.2", "taxid": 90060, "species_taxid": 90060, "relation_to_type": "type", "validated": true, "ani": 79.6035, "matched_fragments": 576, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thauera humireducens", "strain": "strain=SgZ-1", "accession": "GCA_001051995.2", "taxid": 1134435, "species_taxid": 1134435, "relation_to_type": "type", "validated": true, "ani": 79.3513, "matched_fragments": 527, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thauera linaloolentis", "strain": "strain=47Lol = DSM 12138", "accession": "GCA_000310205.1", "taxid": 76112, "species_taxid": 76112, "relation_to_type": "type", "validated": true, "ani": 79.2932, "matched_fragments": 486, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thauera propionica", "strain": "strain=KNDSS-Mac4", "accession": "GCA_002245655.1", "taxid": 2019431, "species_taxid": 2019431, "relation_to_type": "type", "validated": true, "ani": 79.2396, "matched_fragments": 496, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thauera linaloolentis", "strain": "strain=DSM 12138", "accession": "GCA_000621305.1", "taxid": 76112, "species_taxid": 76112, "relation_to_type": "type", "validated": true, "ani": 79.2061, "matched_fragments": 498, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Thauera aromatica", "strain": "strain=K172", "accession": "GCA_003030465.1", "taxid": 59405, "species_taxid": 59405, "relation_to_type": "type", "validated": true, "ani": 79.1951, "matched_fragments": 431, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nitrogeniibacter mangrovi", "strain": "strain=M9-3-2", "accession": "GCA_010983895.1", "taxid": 2016596, "species_taxid": 2016596, "relation_to_type": "type", "validated": true, "ani": 79.0697, "matched_fragments": 568, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aromatoleum aromaticum", "strain": "strain=EbN1", "accession": "GCA_000025965.1", "taxid": 551760, "species_taxid": 551760, "relation_to_type": "type", "validated": true, "ani": 78.312, "matched_fragments": 369, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Aromatoleum anaerobium", "strain": "strain=LuFRes1", "accession": "GCA_012910705.2", "taxid": 182180, "species_taxid": 182180, "relation_to_type": "type", "validated": true, "ani": 78.069, "matched_fragments": 400, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ralstonia pseudosolanacearum", "strain": "strain=LMG 9673", "accession": "GCA_024925465.1", "taxid": 1310165, "species_taxid": 1310165, "relation_to_type": "type", "validated": true, "ani": 77.1853, "matched_fragments": 311, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ralstonia pseudosolanacearum", "strain": "strain=LMG 9673", "accession": "GCA_919586305.1", "taxid": 1310165, "species_taxid": 1310165, "relation_to_type": "type", "validated": true, "ani": 77.1815, "matched_fragments": 310, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Burkholderia perseverans", "strain": "strain=INN12", "accession": "GCA_022870505.1", "taxid": 2615214, "species_taxid": 2615214, "relation_to_type": "type", "validated": true, "ani": 76.6889, "matched_fragments": 300, "total_fragments": 1900, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_012927165.1", "gtdb_species": "s__Zoogloea sp012927165", "ani": 100.0, "matched_fragments": 1896, "total_fragments": 1900, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__Zoogloea", "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": "GCA_009026175.1", "gtdb_species": "s__Zoogloea sp009026175", "ani": 92.016, "matched_fragments": 1350, "total_fragments": 1900, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__Zoogloea", "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_017309145.1", "gtdb_species": "s__Zoogloea sp017309145", "ani": 89.1958, "matched_fragments": 1192, "total_fragments": 1900, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__Zoogloea", "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_016703645.1", "gtdb_species": "s__Zoogloea sp008011925", "ani": 83.9452, "matched_fragments": 1029, "total_fragments": 1900, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__Zoogloea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.96", "min_intra_species_ani": "98.57", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.92", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCA_017302315.1", "gtdb_species": "s__Zoogloea sp017302315", "ani": 83.7851, "matched_fragments": 941, "total_fragments": 1900, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__Zoogloea", "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_018241665.1", "gtdb_species": "s__Zoogloea sp018241665", "ani": 83.65, "matched_fragments": 1071, "total_fragments": 1900, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__Zoogloea", "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_018241685.1", "gtdb_species": "s__Zoogloea sp018241685", "ani": 83.4165, "matched_fragments": 1036, "total_fragments": 1900, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__Zoogloea", "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_006539865.1", "gtdb_species": "s__Zoogloea ramigera", "ani": 83.3875, "matched_fragments": 885, "total_fragments": 1900, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__Zoogloea", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.03", "min_intra_species_ani": "99.03", "mean_intra_species_af": "0.93", "min_intra_species_af": "0.93", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_002028455.1", "gtdb_species": "s__Zoogloea sp002028455", "ani": 83.3298, "matched_fragments": 1087, "total_fragments": 1900, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__Zoogloea", "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_009469605.1", "gtdb_species": "s__Zoogloea sp009469605", "ani": 83.317, "matched_fragments": 981, "total_fragments": 1900, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__Zoogloea", "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_015657735.1", "gtdb_species": "s__Zoogloea sp015657735", "ani": 83.142, "matched_fragments": 662, "total_fragments": 1900, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__Zoogloea", "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_016789125.1", "gtdb_species": "s__Zoogloea sp016789125", "ani": 82.8874, "matched_fragments": 697, "total_fragments": 1900, "gtdb_taxonomy": "d__Bacteria;p__Proteobacteria;c__Gammaproteobacteria;o__Burkholderiales;f__Rhodocyclaceae;g__Zoogloea", "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": -0.175, "cell_length": 0.131, "doubling_h": null, "growth_tmp": 28.0, "optimum_tmp": 29.666, "optimum_ph": 7.0, "genome_size": 3033988.0, "gc_content": 66.936, "coding_genes": null, "rRNA16S_genes": null, "tRNA_genes": null, "gram_stain": 0.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": null, "facultative_respiration": 0.25, "anaerobic_respiration": 0.0, "aerobic_respiration": 0.75, "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": [ "Zoogloea", "dura" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }