{ "type": "genome", "identifier": "GCF_004305975.1", "organism": "Streptomyces otsuchiensis", "title": "Streptomyces otsuchiensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Applied Microbiology, Department of Marine Biosciences, Tokyo University of Marine Science and Technology", "publication": [ {} ], "properties": { "assembly_accession": "GCF_004305975.1", "bioproject": "PRJNA224116", "biosample": "SAMD00147322", "wgs_master": "BHZI00000000.1", "refseq_category": "reference genome", "taxid": "2681388", "species_taxid": "2681388", "organism_name": "Streptomyces otsuchiensis", "infraspecific_name": "strain=OTB305", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/01/17", "asm_name": "ASM430597v1", "asm_submitter": "Applied Microbiology, Department of Marine Biosciences, Tokyo University of Marine Science and Technology", "gbrs_paired_asm": "GCA_004305975.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/004/305/975/GCF_004305975.1_ASM430597v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6150387", "genome_size_ungapped": "6150073", "gc_percent": "73.000000", "replicon_count": "0", "scaffold_count": "752", "contig_count": "752", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_004305975.1-RS_2024_08_03", "annotation_date": "2024-08-03", "total_gene_count": "5345", "protein_coding_gene_count": "5047", "non_coding_gene_count": "69", "pubmed_id": "31693473" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-01-17", "dateModified": "2019-01-17", "datePublished": "2019-01-17", "_annotation": { "sample_count": 1, "sample_organism": [ "Streptomyces otsuchiensis" ], "sample_taxid": [ "2681388" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Japan" ], "sample_host_location_id": [], "data_size": "1.648 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 1.04, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "6142169", "Number of Sequences": "696", "Longest Sequences (bp)": "80849", "N50 (bp)": "18370", "Gap Ratio (%)": "0.005487", "GCcontent (%)": "72.8", "Number of CDSs": "4762", "Average Protein Length": "326.4", "Coding Ratio (%)": "75.9", "Number of rRNAs": "3", "Number of tRNAs": "69", "Number of CRISPRs": "11" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Streptomyces otsuchiensis", "strain": "strain=OTB305", "accession": "GCA_004305975.1", "taxid": 2681388, "species_taxid": 2681388, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1731, "total_fragments": 1746, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Streptomyces bohaiensis", "strain": "strain=11A07", "accession": "GCA_012033785.1", "taxid": 1431344, "species_taxid": 1431344, "relation_to_type": "type", "validated": true, "ani": 84.0307, "matched_fragments": 1034, "total_fragments": 1746, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces lonarensis", "strain": "strain=NCL716", "accession": "GCA_012033735.1", "taxid": 700599, "species_taxid": 700599, "relation_to_type": "type", "validated": true, "ani": 83.8924, "matched_fragments": 1079, "total_fragments": 1746, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces calidiresistens", "strain": "strain=DSM 42108", "accession": "GCA_014141525.1", "taxid": 1485586, "species_taxid": 1485586, "relation_to_type": "type", "validated": true, "ani": 80.855, "matched_fragments": 633, "total_fragments": 1746, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces megasporus", "strain": "strain=NRRL B-16372", "accession": "GCA_000718985.1", "taxid": 44060, "species_taxid": 44060, "relation_to_type": "type", "validated": true, "ani": 80.3039, "matched_fragments": 774, "total_fragments": 1746, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces durbertensis", "strain": "strain=DSM 104538", "accession": "GCA_014156695.1", "taxid": 2448886, "species_taxid": 2448886, "relation_to_type": "type", "validated": true, "ani": 80.2974, "matched_fragments": 686, "total_fragments": 1746, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces alkaliterrae", "strain": "strain=OF1", "accession": "GCA_007097205.2", "taxid": 2213162, "species_taxid": 2213162, "relation_to_type": "type", "validated": true, "ani": 80.2491, "matched_fragments": 693, "total_fragments": 1746, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces zhaozhouensis", "strain": "strain=CGMCC 4.7095", "accession": "GCA_900230195.1", "taxid": 1300267, "species_taxid": 1300267, "relation_to_type": "type", "validated": true, "ani": 80.0352, "matched_fragments": 885, "total_fragments": 1746, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces benahoarensis", "strain": "strain=MZ03-37", "accession": "GCA_007280575.1", "taxid": 2595054, "species_taxid": 2595054, "relation_to_type": "type", "validated": true, "ani": 79.8599, "matched_fragments": 709, "total_fragments": 1746, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces tardus", "strain": "strain=P38-E01", "accession": "GCA_018101125.2", "taxid": 2780544, "species_taxid": 2780544, "relation_to_type": "type", "validated": true, "ani": 79.8013, "matched_fragments": 798, "total_fragments": 1746, "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": 79.7789, "matched_fragments": 834, "total_fragments": 1746, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces marincola", "strain": "strain=SCSIO 64649", "accession": "GCA_020410765.1", "taxid": 2878388, "species_taxid": 2878388, "relation_to_type": "type", "validated": true, "ani": 79.6618, "matched_fragments": 860, "total_fragments": 1746, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces pactum", "strain": "strain=ATCC 27456", "accession": "GCA_016031615.1", "taxid": 68249, "species_taxid": 68249, "relation_to_type": "type", "validated": true, "ani": 79.5494, "matched_fragments": 903, "total_fragments": 1746, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces hoynatensis", "strain": "strain=KCTC 29097", "accession": "GCA_003626535.1", "taxid": 1141874, "species_taxid": 1141874, "relation_to_type": "type", "validated": true, "ani": 79.4883, "matched_fragments": 880, "total_fragments": 1746, "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": 79.4444, "matched_fragments": 693, "total_fragments": 1746, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces sennicomposti", "strain": "strain=RCPT1-4", "accession": "GCA_019890635.1", "taxid": 2873384, "species_taxid": 2873384, "relation_to_type": "type", "validated": true, "ani": 79.3896, "matched_fragments": 805, "total_fragments": 1746, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces rapamycinicus", "strain": "strain=NRRL 5491", "accession": "GCA_024298965.1", "taxid": 1226757, "species_taxid": 1226757, "relation_to_type": "type", "validated": true, "ani": 79.355, "matched_fragments": 877, "total_fragments": 1746, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces orinoci", "strain": "strain=NRRL B-3379", "accession": "GCA_003121295.1", "taxid": 67339, "species_taxid": 67339, "relation_to_type": "type", "validated": true, "ani": 79.3033, "matched_fragments": 744, "total_fragments": 1746, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces panaciradicis", "strain": "strain=NBRC 109811", "accession": "GCA_023516615.1", "taxid": 1470261, "species_taxid": 1470261, "relation_to_type": "type", "validated": true, "ani": 79.1274, "matched_fragments": 803, "total_fragments": 1746, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 1.04, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_004305975.1", "gtdb_species": "s__Streptomyces otsuchiensis", "ani": 100.0, "matched_fragments": 1731, "total_fragments": 1746, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.30", "min_intra_species_ani": "98.24", "mean_intra_species_af": "0.80", "min_intra_species_af": "0.78", "num_clustered_genomes": 3, "status": "conclusive" }, { "accession": "GCF_012033785.1", "gtdb_species": "s__Streptomyces bohaiensis", "ani": 84.0317, "matched_fragments": 1035, "total_fragments": 1746, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "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_012033735.1", "gtdb_species": "s__Streptomyces lonarensis", "ani": 83.8853, "matched_fragments": 1080, "total_fragments": 1746, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "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_012034385.1", "gtdb_species": "s__Streptomyces sp012034385", "ani": 83.861, "matched_fragments": 1056, "total_fragments": 1746, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "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_900116145.1", "gtdb_species": "s__Streptomyces harbinensis", "ani": 80.6581, "matched_fragments": 912, "total_fragments": 1746, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.20", "min_intra_species_ani": "99.18", "mean_intra_species_af": "0.96", "min_intra_species_af": "0.96", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_000718985.1", "gtdb_species": "s__Streptomyces megasporus", "ani": 80.3425, "matched_fragments": 769, "total_fragments": 1746, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "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_007097205.2", "gtdb_species": "s__Streptomyces alkaliterrae", "ani": 80.2297, "matched_fragments": 695, "total_fragments": 1746, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.63", "min_intra_species_ani": "99.32", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.86", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_004348315.1", "gtdb_species": "s__Streptomyces sp004348315", "ani": 79.9124, "matched_fragments": 805, "total_fragments": 1746, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "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_007280575.1", "gtdb_species": "s__Streptomyces sp007280575", "ani": 79.8781, "matched_fragments": 708, "total_fragments": 1746, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "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_000424845.1", "gtdb_species": "s__Streptomyces sp000424845", "ani": 79.8719, "matched_fragments": 748, "total_fragments": 1746, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "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_018101125.2", "gtdb_species": "s__Streptomyces sp018101125", "ani": 79.7951, "matched_fragments": 798, "total_fragments": 1746, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "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_001509485.1", "gtdb_species": "s__Streptomyces sp001509485", "ani": 79.7447, "matched_fragments": 815, "total_fragments": 1746, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "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_001653515.1", "gtdb_species": "s__Streptomyces sp001653515", "ani": 79.2824, "matched_fragments": 706, "total_fragments": 1746, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "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": -0.201, "cell_length": -0.05, "doubling_h": 0.103, "growth_tmp": 27.757, "optimum_tmp": 29.036, "optimum_ph": 7.341, "genome_size": 8292419.302, "gc_content": 71.543, "coding_genes": 7141.289, "rRNA16S_genes": 6.155, "tRNA_genes": 67.804, "gram_stain": 0.998, "sporulation": 0.958, "motility": 0.049, "range_salinity": 0.666, "facultative_respiration": 0.0, "anaerobic_respiration": 0.005, "aerobic_respiration": 0.994, "mesophilic_range_tmp": 0.98, "thermophilic_range_tmp": 0.019, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.208, "coccus_cell_shape": 0.032, "filament_cell_shape": 0.582, "coccobacillus_cell_shape": 0.098, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.076 }, "_genome_taxon": [ "Streptomyces", "otsuchiensis" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }