{ "type": "genome", "identifier": "GCF_002154575.1", "organism": "Streptomyces bobili", "title": "Streptomyces bobili", "description": "na", "data type": "Genome sequencing and assembly", "organization": "USDA/ARS/NCAUR", "publication": [ {} ], "properties": { "assembly_accession": "GCF_002154575.1", "bioproject": "PRJNA224116", "biosample": "SAMN06277082", "wgs_master": "MUBA00000000.1", "refseq_category": "na", "taxid": "67280", "species_taxid": "67280", "organism_name": "Streptomyces bobili", "infraspecific_name": "strain=NRRL B-1338", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2017/05/22", "asm_name": "ASM215457v1", "asm_submitter": "USDA/ARS/NCAUR", "gbrs_paired_asm": "GCA_002154575.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/002/154/575/GCF_002154575.1_ASM215457v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "8062541", "genome_size_ungapped": "8059380", "gc_percent": "71.500000", "replicon_count": "0", "scaffold_count": "946", "contig_count": "946", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_002154575.1-RS_2024_04_22", "annotation_date": "2024-04-22", "total_gene_count": "7820", "protein_coding_gene_count": "7227", "non_coding_gene_count": "75", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2017-05-22", "dateModified": "2017-05-22", "datePublished": "2017-05-22", "_annotation": { "sample_count": 1, "sample_organism": [ "Streptomyces bobili" ], "sample_taxid": [ "67280" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA: New Jersey" ], "sample_host_location_id": [], "data_size": "2.187 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 94.7, "contamination": 1.04, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "8062541", "Number of Sequences": "946", "Longest Sequences (bp)": "80531", "N50 (bp)": "17336", "Gap Ratio (%)": "0.041687", "GCcontent (%)": "71.3", "Number of CDSs": "6718", "Average Protein Length": "310.4", "Coding Ratio (%)": "77.6", "Number of rRNAs": "5", "Number of tRNAs": "81", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Streptomyces bobili", "strain": "strain=NRRL B-1338", "accession": "GCA_002154575.1", "taxid": 67280, "species_taxid": 67280, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2212, "total_fragments": 2244, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Streptomyces galilaeus", "strain": "strain=JCM 4757", "accession": "GCA_014650835.1", "taxid": 33899, "species_taxid": 33899, "relation_to_type": "type", "validated": true, "ani": 97.5989, "matched_fragments": 2053, "total_fragments": 2244, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Streptomyces galilaeus", "strain": "strain=ATCC 14969", "accession": "GCA_008704575.1", "taxid": 33899, "species_taxid": 33899, "relation_to_type": "type", "validated": true, "ani": 97.5716, "matched_fragments": 1906, "total_fragments": 2244, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Streptomyces phaeofaciens", "strain": "strain=JCM 4125", "accession": "GCA_014648915.1", "taxid": 68254, "species_taxid": 68254, "relation_to_type": "type", "validated": true, "ani": 86.8249, "matched_fragments": 1685, "total_fragments": 2244, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces asoensis", "strain": "strain=NBRC 13813", "accession": "GCA_016860545.1", "taxid": 249586, "species_taxid": 249586, "relation_to_type": "type", "validated": true, "ani": 86.473, "matched_fragments": 1597, "total_fragments": 2244, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces rishiriensis", "strain": "strain=NBRC 13407", "accession": "GCA_003112535.1", "taxid": 68264, "species_taxid": 68264, "relation_to_type": "type", "validated": true, "ani": 86.2532, "matched_fragments": 1593, "total_fragments": 2244, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces humidus", "strain": "strain=JCM 4386", "accession": "GCA_014649655.1", "taxid": 52259, "species_taxid": 52259, "relation_to_type": "type", "validated": true, "ani": 86.0632, "matched_fragments": 1512, "total_fragments": 2244, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces dysideae", "strain": "strain=RV15", "accession": "GCA_001514305.1", "taxid": 909626, "species_taxid": 909626, "relation_to_type": "type", "validated": true, "ani": 85.38, "matched_fragments": 1520, "total_fragments": 2244, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces justiciae", "strain": "strain=3R004", "accession": "GCA_015163075.1", "taxid": 2780140, "species_taxid": 2780140, "relation_to_type": "type", "validated": true, "ani": 85.2975, "matched_fragments": 1587, "total_fragments": 2244, "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": 85.0647, "matched_fragments": 1446, "total_fragments": 2244, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces glaucescens", "strain": "strain=NRRL B-2706", "accession": "GCA_002154375.1", "taxid": 1907, "species_taxid": 1907, "relation_to_type": "type", "validated": true, "ani": 85.0598, "matched_fragments": 1267, "total_fragments": 2244, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces canus", "strain": "strain=DSM 40017", "accession": "GCA_001514145.1", "taxid": 58343, "species_taxid": 58343, "relation_to_type": "suspected-type", "validated": true, "ani": 84.9805, "matched_fragments": 1630, "total_fragments": 2244, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces chartreusis", "strain": "strain=JCM 4570", "accession": "GCA_014650315.1", "taxid": 1969, "species_taxid": 1969, "relation_to_type": "suspected-type", "validated": true, "ani": 84.9558, "matched_fragments": 1580, "total_fragments": 2244, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces pseudovenezuelae", "strain": "strain=DSM 40212", "accession": "GCA_001513955.1", "taxid": 67350, "species_taxid": 67350, "relation_to_type": "type", "validated": true, "ani": 84.9388, "matched_fragments": 1577, "total_fragments": 2244, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces chartreusis", "strain": "strain=ATCC 14922", "accession": "GCA_008704715.1", "taxid": 1969, "species_taxid": 1969, "relation_to_type": "suspected-type", "validated": true, "ani": 84.9284, "matched_fragments": 1581, "total_fragments": 2244, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces blattellae", "strain": "strain=TRM63209", "accession": "GCA_009709555.1", "taxid": 2569855, "species_taxid": 2569855, "relation_to_type": "type", "validated": true, "ani": 84.8565, "matched_fragments": 1363, "total_fragments": 2244, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces plumbidurans", "strain": "strain=KC 17012", "accession": "GCA_019857225.1", "taxid": 2814589, "species_taxid": 2814589, "relation_to_type": "type", "validated": true, "ani": 84.7717, "matched_fragments": 1382, "total_fragments": 2244, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces barringtoniae", "strain": "strain=JA03", "accession": "GCA_020819595.1", "taxid": 2892029, "species_taxid": 2892029, "relation_to_type": "type", "validated": true, "ani": 84.4827, "matched_fragments": 1402, "total_fragments": 2244, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces bottropensis", "strain": "strain=ATCC 25435", "accession": "GCA_000383595.1", "taxid": 42235, "species_taxid": 42235, "relation_to_type": "type", "validated": true, "ani": 84.0482, "matched_fragments": 1441, "total_fragments": 2244, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces bottropensis", "strain": "strain=ATCC 25435", "accession": "GCA_000340335.2", "taxid": 42235, "species_taxid": 42235, "relation_to_type": "type", "validated": true, "ani": 84.0423, "matched_fragments": 1449, "total_fragments": 2244, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 94.7, "contamination": 1.04, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_002154575.1", "gtdb_species": "s__Streptomyces bobili", "ani": 100.0, "matched_fragments": 2212, "total_fragments": 2244, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.61", "min_intra_species_ani": "97.61", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.85", "num_clustered_genomes": 3, "status": "conclusive" }, { "accession": "GCF_001896135.2", "gtdb_species": "s__Streptomyces phaeoluteigriseus", "ani": 93.3151, "matched_fragments": 1788, "total_fragments": 2244, "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_014649375.1", "gtdb_species": "s__Streptomyces aurantiogriseus", "ani": 88.0546, "matched_fragments": 1708, "total_fragments": 2244, "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_013085465.1", "gtdb_species": "s__Streptomyces cacaoi_A", "ani": 87.1525, "matched_fragments": 1693, "total_fragments": 2244, "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_900129855.1", "gtdb_species": "s__Streptomyces sp900129855", "ani": 86.9181, "matched_fragments": 1598, "total_fragments": 2244, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.68", "min_intra_species_ani": "99.68", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900110755.1", "gtdb_species": "s__Streptomyces sp900110755", "ani": 86.8359, "matched_fragments": 1529, "total_fragments": 2244, "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_002019855.1", "gtdb_species": "s__Streptomyces antibioticus_B", "ani": 86.4422, "matched_fragments": 1538, "total_fragments": 2244, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.20", "min_intra_species_ani": "96.76", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.90", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_001746365.1", "gtdb_species": "s__Streptomyces sp001746365", "ani": 86.1389, "matched_fragments": 1560, "total_fragments": 2244, "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_001514285.1", "gtdb_species": "s__Streptomyces sp001514285", "ani": 86.0566, "matched_fragments": 1552, "total_fragments": 2244, "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_000721105.1", "gtdb_species": "s__Streptomyces cellulosae_A", "ani": 85.4902, "matched_fragments": 1549, "total_fragments": 2244, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 96.8346, "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_003143935.1", "gtdb_species": "s__Streptomyces sp003143935", "ani": 85.3035, "matched_fragments": 1562, "total_fragments": 2244, "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": "GCA_002128465.1", "gtdb_species": "s__Streptomyces pharetrae", "ani": 84.9755, "matched_fragments": 1350, "total_fragments": 2244, "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_001513955.1", "gtdb_species": "s__Streptomyces pseudovenezuelae", "ani": 84.9704, "matched_fragments": 1572, "total_fragments": 2244, "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_001746295.1", "gtdb_species": "s__Streptomyces sp001746295", "ani": 84.9414, "matched_fragments": 1577, "total_fragments": 2244, "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_008042075.1", "gtdb_species": "s__Streptomyces sp008042075", "ani": 84.8943, "matched_fragments": 1542, "total_fragments": 2244, "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_007827595.1", "gtdb_species": "s__Streptomyces sp007827595", "ani": 84.6212, "matched_fragments": 1464, "total_fragments": 2244, "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_003675325.1", "gtdb_species": "s__Streptomyces sp003675325", "ani": 84.4712, "matched_fragments": 1355, "total_fragments": 2244, "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_000716605.1", "gtdb_species": "s__Streptomyces sp000716605", "ani": 84.4266, "matched_fragments": 1502, "total_fragments": 2244, "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_014873495.1", "gtdb_species": "s__Streptomyces stelliscabiei", "ani": 84.0823, "matched_fragments": 1511, "total_fragments": 2244, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 96.7549, "mean_intra_species_ani": "99.87", "min_intra_species_ani": "99.68", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.96", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_000383595.1", "gtdb_species": "s__Streptomyces bottropensis", "ani": 84.0367, "matched_fragments": 1443, "total_fragments": 2244, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 96.7549, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 3, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.201, "cell_length": -0.05, "doubling_h": 0.103, "growth_tmp": 26.5, "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": 1.0, "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", "bobili" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }