{ "type": "genome", "identifier": "GCF_016901035.1", "organism": "Streptomyces durocortorensis", "title": "Streptomyces durocortorensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University Reims Champagne Ardennes UMR FARE", "publication": [ {} ], "properties": { "assembly_accession": "GCF_016901035.1", "bioproject": "PRJNA224116", "biosample": "SAMN17842843", "wgs_master": "JAFEUF000000000.1", "refseq_category": "reference genome", "taxid": "2811104", "species_taxid": "2811104", "organism_name": "Streptomyces durocortorensis", "infraspecific_name": "strain=RHZ10", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/02/16", "asm_name": "ASM1690103v1", "asm_submitter": "University Reims Champagne Ardennes UMR FARE", "gbrs_paired_asm": "GCA_016901035.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/016/901/035/GCF_016901035.1_ASM1690103v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "7959868", "genome_size_ungapped": "7957972", "gc_percent": "71.500000", "replicon_count": "0", "scaffold_count": "616", "contig_count": "616", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_016901035.1-RS_2024_08_29", "annotation_date": "2024-08-29", "total_gene_count": "7301", "protein_coding_gene_count": "6858", "non_coding_gene_count": "75", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-02-16", "dateModified": "2021-02-16", "datePublished": "2021-02-16", "_annotation": { "sample_count": 1, "sample_organism": [ "Streptomyces durocortorensis" ], "sample_taxid": [ "2811104" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "France" ], "sample_host_location_id": [], "data_size": "2.168 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 9.38, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "7959868", "Number of Sequences": "616", "Longest Sequences (bp)": "128358", "N50 (bp)": "26787", "Gap Ratio (%)": "0.028191", "GCcontent (%)": "71.7", "Number of CDSs": "6796", "Average Protein Length": "314.5", "Coding Ratio (%)": "80.6", "Number of rRNAs": "2", "Number of tRNAs": "79", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Streptomyces parvus", "strain": "strain=JCM 4069", "accession": "GCA_014648875.1", "taxid": 66428, "species_taxid": 66428, "relation_to_type": "type", "validated": true, "ani": 93.4947, "matched_fragments": 1917, "total_fragments": 2378, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces parvus", "strain": "strain=NRRL B-1455", "accession": "GCA_008632535.1", "taxid": 66428, "species_taxid": 66428, "relation_to_type": "type", "validated": true, "ani": 93.4032, "matched_fragments": 1793, "total_fragments": 2378, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces sindenensis", "strain": "strain=JCM 4164", "accession": "GCA_014649035.1", "taxid": 67363, "species_taxid": 67363, "relation_to_type": "type", "validated": true, "ani": 92.9453, "matched_fragments": 1826, "total_fragments": 2378, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces badius", "strain": "strain=JCM 4350", "accession": "GCA_014649415.1", "taxid": 1941, "species_taxid": 1941, "relation_to_type": "type", "validated": true, "ani": 92.8789, "matched_fragments": 1808, "total_fragments": 2378, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces anulatus", "strain": "strain=JCM 4721", "accession": "GCA_014650675.1", "taxid": 1892, "species_taxid": 1892, "relation_to_type": "type", "validated": true, "ani": 92.1956, "matched_fragments": 1894, "total_fragments": 2378, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces griseus", "strain": "strain=NCTC13033", "accession": "GCA_900460065.1", "taxid": 1911, "species_taxid": 1911, "relation_to_type": "type", "validated": true, "ani": 91.592, "matched_fragments": 1877, "total_fragments": 2378, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces griseus", "strain": "strain=DSM 40236", "accession": "GCA_900105705.1", "taxid": 1911, "species_taxid": 1911, "relation_to_type": "type", "validated": true, "ani": 91.4781, "matched_fragments": 1895, "total_fragments": 2378, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces californicus", "strain": "strain=NRRL B-2098", "accession": "GCA_000717645.1", "taxid": 67351, "species_taxid": 67351, "relation_to_type": "type", "validated": true, "ani": 90.6835, "matched_fragments": 1792, "total_fragments": 2378, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces californicus", "strain": "strain=FDAARGOS_1209", "accession": "GCA_016906185.1", "taxid": 67351, "species_taxid": 67351, "relation_to_type": "type", "validated": true, "ani": 90.6427, "matched_fragments": 1808, "total_fragments": 2378, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces microflavus", "strain": "strain=JCM 4496", "accession": "GCA_014650075.1", "taxid": 1919, "species_taxid": 1919, "relation_to_type": "type", "validated": true, "ani": 89.6443, "matched_fragments": 1784, "total_fragments": 2378, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces rhizosphaericola", "strain": "strain=1AS2c", "accession": "GCA_004794175.1", "taxid": 2564098, "species_taxid": 2564098, "relation_to_type": "type", "validated": true, "ani": 88.9419, "matched_fragments": 1442, "total_fragments": 2378, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "[Kitasatospora] papulosa", "strain": "strain=NRRL B-16504", "accession": "GCA_000717245.1", "taxid": 1464011, "species_taxid": 1464011, "relation_to_type": "type", "validated": true, "ani": 84.7273, "matched_fragments": 1463, "total_fragments": 2378, "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": 82.5413, "matched_fragments": 1263, "total_fragments": 2378, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces harenosi", "strain": "strain=PRKS01-65", "accession": "GCA_011008945.1", "taxid": 2697029, "species_taxid": 2697029, "relation_to_type": "type", "validated": true, "ani": 81.8172, "matched_fragments": 1127, "total_fragments": 2378, "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": 81.4392, "matched_fragments": 1197, "total_fragments": 2378, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 9.38, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_016901035.1", "gtdb_species": "s__Streptomyces sp016901035", "ani": 100.0, "matched_fragments": 2353, "total_fragments": 2378, "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": "conclusive" }, { "accession": "GCA_014649555.1", "gtdb_species": "s__Streptomyces globisporus", "ani": 94.1452, "matched_fragments": 1963, "total_fragments": 2378, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 96.2941, "mean_intra_species_ani": "98.88", "min_intra_species_ani": "97.57", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.86", "num_clustered_genomes": 14, "status": "-" }, { "accession": "GCF_014649875.1", "gtdb_species": "s__Streptomyces rubiginosohelvolus", "ani": 94.0043, "matched_fragments": 1903, "total_fragments": 2378, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 96.2941, "mean_intra_species_ani": "98.09", "min_intra_species_ani": "96.67", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.87", "num_clustered_genomes": 22, "status": "-" }, { "accession": "GCA_002551355.1", "gtdb_species": "s__Streptomyces sp002551355", "ani": 93.9069, "matched_fragments": 1971, "total_fragments": 2378, "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_003501885.1", "gtdb_species": "s__Streptomyces globisporus_D", "ani": 93.7289, "matched_fragments": 1712, "total_fragments": 2378, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.6693, "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_014648875.1", "gtdb_species": "s__Streptomyces parvus", "ani": 93.503, "matched_fragments": 1916, "total_fragments": 2378, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.2347, "mean_intra_species_ani": "97.39", "min_intra_species_ani": "96.11", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.79", "num_clustered_genomes": 24, "status": "-" }, { "accession": "GCF_000718455.1", "gtdb_species": "s__Streptomyces globisporus_A", "ani": 93.4067, "matched_fragments": 1803, "total_fragments": 2378, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.2621, "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_001687325.1", "gtdb_species": "s__Streptomyces sp001687325", "ani": 93.3513, "matched_fragments": 1871, "total_fragments": 2378, "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_002154345.1", "gtdb_species": "s__Streptomyces fimicarius", "ani": 92.4753, "matched_fragments": 1649, "total_fragments": 2378, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.88", "min_intra_species_ani": "95.22", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.81", "num_clustered_genomes": 11, "status": "-" }, { "accession": "GCF_014650675.1", "gtdb_species": "s__Streptomyces anulatus", "ani": 92.1732, "matched_fragments": 1897, "total_fragments": 2378, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.62", "min_intra_species_ani": "96.42", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.81", "num_clustered_genomes": 27, "status": "-" }, { "accession": "GCF_018619185.1", "gtdb_species": "s__Streptomyces sp018619185", "ani": 91.9797, "matched_fragments": 1745, "total_fragments": 2378, "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_014650075.1", "gtdb_species": "s__Streptomyces microflavus", "ani": 89.6704, "matched_fragments": 1779, "total_fragments": 2378, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.25", "min_intra_species_ani": "97.27", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.85", "num_clustered_genomes": 13, "status": "-" }, { "accession": "GCF_000718135.1", "gtdb_species": "s__Streptomyces cyaneofuscatus", "ani": 89.5126, "matched_fragments": 1804, "total_fragments": 2378, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.78", "min_intra_species_ani": "95.81", "mean_intra_species_af": "0.91", "min_intra_species_af": "0.85", "num_clustered_genomes": 12, "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", "durocortorensis" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }