{ "type": "genome", "identifier": "GCF_009906315.1", "organism": "Kineococcus vitellinus", "title": "Kineococcus vitellinus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Institute for Integrative Systems Biology (University of Valencia-CSIC)", "publication": [ {} ], "properties": { "assembly_accession": "GCF_009906315.1", "bioproject": "PRJNA224116", "biosample": "SAMN13758030", "wgs_master": "JAAALL000000000.1", "refseq_category": "reference genome", "taxid": "2696565", "species_taxid": "2696565", "organism_name": "Kineococcus vitellinus", "infraspecific_name": "strain=T13", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/01/19", "asm_name": "ASM990631v1", "asm_submitter": "Institute for Integrative Systems Biology (University of Valencia-CSIC)", "gbrs_paired_asm": "GCA_009906315.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/906/315/GCF_009906315.1_ASM990631v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4855962", "genome_size_ungapped": "4855682", "gc_percent": "75.500000", "replicon_count": "0", "scaffold_count": "698", "contig_count": "698", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_009906315.1-RS_2024_03_29", "annotation_date": "2024-03-29", "total_gene_count": "4812", "protein_coding_gene_count": "4641", "non_coding_gene_count": "59", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-01-19", "dateModified": "2020-01-19", "datePublished": "2020-01-19", "_annotation": { "sample_count": 1, "sample_organism": [ "Kineococcus vitellinus" ], "sample_taxid": [ "2696565" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Spain: Almeria" ], "sample_host_location_id": [], "data_size": "1.272 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)": "4855962", "Number of Sequences": "698", "Longest Sequences (bp)": "95153", "N50 (bp)": "12976", "Gap Ratio (%)": "0.005766", "GCcontent (%)": "75.4", "Number of CDSs": "4082", "Average Protein Length": "309.7", "Coding Ratio (%)": "78.1", "Number of rRNAs": "2", "Number of tRNAs": "60", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Kineococcus vitellinus", "strain": "strain=T13", "accession": "GCA_009906315.1", "taxid": 2696565, "species_taxid": 2696565, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1278, "total_fragments": 1299, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Kineococcus radiotolerans", "strain": "strain=SRS30216", "accession": "GCA_000017305.1", "taxid": 131568, "species_taxid": 131568, "relation_to_type": "type", "validated": true, "ani": 84.5359, "matched_fragments": 900, "total_fragments": 1299, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kineococcus indalonis", "strain": "strain=T90", "accession": "GCA_009906395.1", "taxid": 2696566, "species_taxid": 2696566, "relation_to_type": "type", "validated": true, "ani": 84.1497, "matched_fragments": 700, "total_fragments": 1299, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kineococcus aurantiacus", "strain": "strain=DSM 7487", "accession": "GCA_013409345.1", "taxid": 37633, "species_taxid": 37633, "relation_to_type": "type", "validated": true, "ani": 83.8171, "matched_fragments": 886, "total_fragments": 1299, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kineococcus rhizosphaerae", "strain": "strain=DSM 19711", "accession": "GCA_003002055.1", "taxid": 559628, "species_taxid": 559628, "relation_to_type": "type", "validated": true, "ani": 83.0747, "matched_fragments": 869, "total_fragments": 1299, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kineococcus rubinsiae", "strain": "strain=B12", "accession": "GCA_011839805.1", "taxid": 2609562, "species_taxid": 2609562, "relation_to_type": "type", "validated": true, "ani": 82.1299, "matched_fragments": 795, "total_fragments": 1299, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kineococcus siccus", "strain": "strain=R8", "accession": "GCA_009906795.1", "taxid": 2696567, "species_taxid": 2696567, "relation_to_type": "type", "validated": true, "ani": 81.787, "matched_fragments": 693, "total_fragments": 1299, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Oceanitalea stevensii", "strain": "strain=Sa1BUA1", "accession": "GCA_014837105.1", "taxid": 2763072, "species_taxid": 2763072, "relation_to_type": "type", "validated": true, "ani": 77.2374, "matched_fragments": 410, "total_fragments": 1299, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Serinicoccus marinus", "strain": "strain=DSM 15273", "accession": "GCA_008386315.1", "taxid": 247333, "species_taxid": 247333, "relation_to_type": "type", "validated": true, "ani": 77.1761, "matched_fragments": 323, "total_fragments": 1299, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Ornithinimicrobium kibberense", "strain": "strain=DSM 17687", "accession": "GCA_006519705.1", "taxid": 282060, "species_taxid": 282060, "relation_to_type": "type", "validated": true, "ani": 77.1658, "matched_fragments": 359, "total_fragments": 1299, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Occultella glacieicola", "strain": "strain=T3246-1", "accession": "GCA_004353825.1", "taxid": 2518684, "species_taxid": 2518684, "relation_to_type": "type", "validated": true, "ani": 76.7087, "matched_fragments": 357, "total_fragments": 1299, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nonomuraea roseoviolacea subsp. carminata", "strain": "strain=DSM 44170", "accession": "GCA_024172185.1", "taxid": 160689, "species_taxid": 103837, "relation_to_type": "type", "validated": true, "ani": 76.294, "matched_fragments": 568, "total_fragments": 1299, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_009906315.1", "gtdb_species": "s__Kineococcus vitellinus", "ani": 100.0, "matched_fragments": 1278, "total_fragments": 1299, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Kineococcaceae;g__Kineococcus", "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_000017305.1", "gtdb_species": "s__Kineococcus radiotolerans", "ani": 84.5057, "matched_fragments": 903, "total_fragments": 1299, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Kineococcaceae;g__Kineococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.46", "min_intra_species_ani": "98.46", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_013409345.1", "gtdb_species": "s__Kineococcus aurantiacus", "ani": 83.8973, "matched_fragments": 879, "total_fragments": 1299, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Kineococcaceae;g__Kineococcus", "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_003002055.1", "gtdb_species": "s__Kineococcus rhizosphaerae", "ani": 83.099, "matched_fragments": 866, "total_fragments": 1299, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Kineococcaceae;g__Kineococcus", "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_011839805.1", "gtdb_species": "s__Kineococcus rubinsiae", "ani": 82.1031, "matched_fragments": 797, "total_fragments": 1299, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Kineococcaceae;g__Kineococcus", "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_009906795.1", "gtdb_species": "s__Kineococcus siccus", "ani": 81.689, "matched_fragments": 702, "total_fragments": 1299, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Kineococcaceae;g__Kineococcus", "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_902806005.1", "gtdb_species": "s__Quadrisphaera sp902806005", "ani": 78.055, "matched_fragments": 343, "total_fragments": 1299, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Quadrisphaeraceae;g__Quadrisphaera", "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_004306155.1", "gtdb_species": "s__Cellulomonas biazotea", "ani": 77.1015, "matched_fragments": 421, "total_fragments": 1299, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Cellulomonadaceae;g__Cellulomonas", "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_003851725.1", "gtdb_species": "s__Cellulomonas algicola", "ani": 77.0886, "matched_fragments": 421, "total_fragments": 1299, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Actinomycetales;f__Cellulomonadaceae;g__Cellulomonas", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.47", "min_intra_species_ani": "95.68", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.94", "num_clustered_genomes": 3, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": 0.0, "cell_length": 0.0, "doubling_h": null, "growth_tmp": 29.2, "optimum_tmp": 31.433, "optimum_ph": 8.0, "genome_size": 5061461.866, "gc_content": 72.525, "coding_genes": 4618.0, "rRNA16S_genes": 4.0, "tRNA_genes": 49.0, "gram_stain": 1.0, "sporulation": 0.0, "motility": 1.0, "range_salinity": null, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.0, "coccus_cell_shape": 1.0, "filament_cell_shape": 0.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Kineococcus", "vitellinus" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }