{ "type": "genome", "identifier": "GCF_003751605.1", "organism": "Kitasatospora cineracea", "title": "Kitasatospora cineracea", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003751605.1", "bioproject": "PRJNA224116", "biosample": "SAMN10363103", "wgs_master": "RJVJ00000000.1", "refseq_category": "na", "taxid": "88074", "species_taxid": "88074", "organism_name": "Kitasatospora cineracea", "infraspecific_name": "strain=DSM 44780", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/11/15", "asm_name": "ASM375160v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_003751605.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/751/605/GCF_003751605.1_ASM375160v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "8759731", "genome_size_ungapped": "8759731", "gc_percent": "74.000000", "replicon_count": "0", "scaffold_count": "5", "contig_count": "5", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003751605.1-RS_2024_04_22", "annotation_date": "2024-04-22", "total_gene_count": "7793", "protein_coding_gene_count": "7504", "non_coding_gene_count": "104", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-11-15", "dateModified": "2018-11-15", "datePublished": "2018-11-15", "_annotation": { "sample_count": 1, "sample_organism": [ "Kitasatospora cineracea" ], "sample_taxid": [ "88074" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "2.288 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 5.21, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "8759731", "Number of Sequences": "5", "Longest Sequences (bp)": "5867305", "N50 (bp)": "5867305", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "73.9", "Number of CDSs": "7922", "Average Protein Length": "324.0", "Coding Ratio (%)": "87.9", "Number of rRNAs": "26", "Number of tRNAs": "100", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Kitasatospora phosalacinea", "strain": "strain=NRRL B-16230", "accession": "GCA_000716545.1", "taxid": 2065, "species_taxid": 2065, "relation_to_type": "type", "validated": true, "ani": 91.7956, "matched_fragments": 2053, "total_fragments": 2917, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kitasatospora setae", "strain": "strain=KM-6054", "accession": "GCA_000269985.1", "taxid": 2066, "species_taxid": 2066, "relation_to_type": "type", "validated": true, "ani": 91.0594, "matched_fragments": 2105, "total_fragments": 2917, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kitasatospora setae", "strain": "strain=NRRL B-16185", "accession": "GCA_000716965.1", "taxid": 2066, "species_taxid": 2066, "relation_to_type": "type", "validated": true, "ani": 91.0571, "matched_fragments": 2015, "total_fragments": 2917, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kitasatospora cheerisanensis", "strain": "strain=KCTC 2395", "accession": "GCA_000696185.1", "taxid": 81942, "species_taxid": 81942, "relation_to_type": "type", "validated": true, "ani": 88.6347, "matched_fragments": 1953, "total_fragments": 2917, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kitasatospora griseola", "strain": "strain=JCM 3339", "accession": "GCA_014648555.1", "taxid": 2064, "species_taxid": 2064, "relation_to_type": "type", "validated": true, "ani": 88.0632, "matched_fragments": 1914, "total_fragments": 2917, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kitasatospora paracochleata", "strain": "strain=DSM 41656", "accession": "GCA_024172095.1", "taxid": 58354, "species_taxid": 58354, "relation_to_type": "type", "validated": true, "ani": 84.5493, "matched_fragments": 1694, "total_fragments": 2917, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kitasatospora purpeofusca", "strain": "strain=NRRL B-1817", "accession": "GCA_000718025.1", "taxid": 67352, "species_taxid": 67352, "relation_to_type": "type", "validated": true, "ani": 82.7992, "matched_fragments": 1647, "total_fragments": 2917, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Kitasatospora humi", "strain": "strain=RB6PN24", "accession": "GCA_020907985.1", "taxid": 2893891, "species_taxid": 2893891, "relation_to_type": "type", "validated": true, "ani": 81.9913, "matched_fragments": 1384, "total_fragments": 2917, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces lichenis", "strain": "strain=LCR6-01", "accession": "GCA_023218175.1", "taxid": 2306967, "species_taxid": 2306967, "relation_to_type": "type", "validated": true, "ani": 79.2018, "matched_fragments": 1198, "total_fragments": 2917, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces rubrisoli", "strain": "strain=DSM 42083", "accession": "GCA_024436055.1", "taxid": 1387313, "species_taxid": 1387313, "relation_to_type": "type", "validated": true, "ani": 79.1795, "matched_fragments": 1009, "total_fragments": 2917, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 5.21, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003751605.1", "gtdb_species": "s__Kitasatospora cineracea", "ani": 100.0, "matched_fragments": 2915, "total_fragments": 2917, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Kitasatospora", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.58", "min_intra_species_ani": "96.37", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.86", "num_clustered_genomes": 4, "status": "conclusive" }, { "accession": "GCF_002813165.1", "gtdb_species": "s__Kitasatospora sp002813165", "ani": 92.6064, "matched_fragments": 2103, "total_fragments": 2917, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Kitasatospora", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.28", "min_intra_species_ani": "97.28", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.90", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000717185.1", "gtdb_species": "s__Kitasatospora phosalacinea_A", "ani": 91.8581, "matched_fragments": 2104, "total_fragments": 2917, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Kitasatospora", "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_000716545.1", "gtdb_species": "s__Kitasatospora phosalacinea", "ani": 91.8296, "matched_fragments": 2049, "total_fragments": 2917, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Kitasatospora", "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_013364235.1", "gtdb_species": "s__Kitasatospora sp013364235", "ani": 91.7065, "matched_fragments": 2152, "total_fragments": 2917, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Kitasatospora", "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_000269985.1", "gtdb_species": "s__Kitasatospora setae", "ani": 91.0329, "matched_fragments": 2109, "total_fragments": 2917, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Kitasatospora", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.98", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 3, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": null, "cell_length": null, "doubling_h": null, "growth_tmp": 29.0, "optimum_tmp": 27.571, "optimum_ph": 6.625, "genome_size": 8184785.794, "gc_content": 72.563, "coding_genes": 6651.222, "rRNA16S_genes": 8.0, "tRNA_genes": 68.666, "gram_stain": 1.0, "sporulation": 1.0, "motility": 0.0, "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": 0.5, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.5, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Kitasatospora", "cineracea" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }