{ "type": "genome", "identifier": "GCF_003002055.1", "organism": "Kineococcus rhizosphaerae", "title": "Kineococcus rhizosphaerae", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003002055.1", "bioproject": "PRJNA224116", "biosample": "SAMN07621172", "wgs_master": "PVZF00000000.1", "refseq_category": "reference genome", "taxid": "559628", "species_taxid": "559628", "organism_name": "Kineococcus rhizosphaerae", "infraspecific_name": "strain=DSM 19711", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/03/15", "asm_name": "ASM300205v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_003002055.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/002/055/GCF_003002055.1_ASM300205v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5610032", "genome_size_ungapped": "5610032", "gc_percent": "74.000000", "replicon_count": "0", "scaffold_count": "63", "contig_count": "63", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003002055.1-RS_2024_05_03", "annotation_date": "2024-05-03", "total_gene_count": "5425", "protein_coding_gene_count": "5280", "non_coding_gene_count": "59", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-03-15", "dateModified": "2018-03-15", "datePublished": "2018-03-15", "_annotation": { "sample_count": 1, "sample_organism": [ "Kineococcus rhizosphaerae" ], "sample_taxid": [ "559628" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea:Jeju, Mara Island" ], "sample_host_location_id": [], "data_size": "1.466 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)": "5610032", "Number of Sequences": "63", "Longest Sequences (bp)": "894184", "N50 (bp)": "322375", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "73.8", "Number of CDSs": "5372", "Average Protein Length": "319.2", "Coding Ratio (%)": "91.7", "Number of rRNAs": "2", "Number of tRNAs": "61", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Kineococcus rhizosphaerae", "strain": "strain=DSM 19711", "accession": "GCA_003002055.1", "taxid": 559628, "species_taxid": 559628, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1838, "total_fragments": 1839, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Kineococcus aurantiacus", "strain": "strain=DSM 7487", "accession": "GCA_013409345.1", "taxid": 37633, "species_taxid": 37633, "relation_to_type": "type", "validated": true, "ani": 87.5943, "matched_fragments": 1292, "total_fragments": 1839, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kineococcus radiotolerans", "strain": "strain=SRS30216", "accession": "GCA_000017305.1", "taxid": 131568, "species_taxid": 131568, "relation_to_type": "type", "validated": true, "ani": 83.9033, "matched_fragments": 1069, "total_fragments": 1839, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kineococcus vitellinus", "strain": "strain=T13", "accession": "GCA_009906315.1", "taxid": 2696565, "species_taxid": 2696565, "relation_to_type": "type", "validated": true, "ani": 83.2287, "matched_fragments": 839, "total_fragments": 1839, "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": 81.6338, "matched_fragments": 701, "total_fragments": 1839, "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": 81.0987, "matched_fragments": 952, "total_fragments": 1839, "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": 80.8708, "matched_fragments": 801, "total_fragments": 1839, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Georgenia wutianyii", "strain": "strain=Z294", "accession": "GCA_006349365.1", "taxid": 2585135, "species_taxid": 2585135, "relation_to_type": "type", "validated": true, "ani": 76.8641, "matched_fragments": 454, "total_fragments": 1839, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Cellulomonas palmilytica", "strain": "strain=EW123", "accession": "GCA_021590045.1", "taxid": 2608402, "species_taxid": 2608402, "relation_to_type": "type", "validated": true, "ani": 76.8052, "matched_fragments": 483, "total_fragments": 1839, "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": 76.6965, "matched_fragments": 381, "total_fragments": 1839, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Occultella kanbiaonis", "strain": "strain=HY164", 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"98.46", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_009906315.1", "gtdb_species": "s__Kineococcus vitellinus", "ani": 83.1836, "matched_fragments": 843, "total_fragments": 1839, "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": 81.1144, "matched_fragments": 950, "total_fragments": 1839, "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": 80.8874, "matched_fragments": 799, "total_fragments": 1839, "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": 0.0, "cell_length": 0.0, "doubling_h": null, "growth_tmp": 28.0, "optimum_tmp": 31.433, "optimum_ph": 8.0, "genome_size": 5610032.0, "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, 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