{ "type": "genome", "identifier": "GCF_014650455.1", "organism": "Streptomyces xanthochromogenes", "title": "Streptomyces xanthochromogenes", "description": "na", "data type": "Genome sequencing and assembly", "organization": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014650455.1", "bioproject": "PRJNA224116", "biosample": "SAMD00245487", "wgs_master": "BMUZ00000000.1", "refseq_category": "na", "taxid": "67384", "species_taxid": "67384", "organism_name": "Streptomyces xanthochromogenes", "infraspecific_name": "strain=JCM 4612", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/09/12", "asm_name": "ASM1465045v1", "asm_submitter": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "gbrs_paired_asm": "GCA_014650455.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/650/455/GCF_014650455.1_ASM1465045v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "8774150", "genome_size_ungapped": "8773612", "gc_percent": "71.000000", "replicon_count": "0", "scaffold_count": "54", "contig_count": "54", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014650455.1-RS_2024_09_02", "annotation_date": "2024-09-02", "total_gene_count": "7912", "protein_coding_gene_count": "7727", "non_coding_gene_count": "74", "pubmed_id": "30832757" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-09-12", "dateModified": "2020-09-12", "datePublished": "2020-09-12", "_annotation": { "sample_count": 1, "sample_organism": [ "Streptomyces xanthochromogenes" ], "sample_taxid": [ "67384" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "not applicable" ], "sample_host_location_id": [], "data_size": "2.364 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)": "8774150", "Number of Sequences": "54", "Longest Sequences (bp)": "837651", "N50 (bp)": "440327", "Gap Ratio (%)": "0.006132", "GCcontent (%)": "71.1", "Number of CDSs": "8027", "Average Protein Length": "315.7", "Coding Ratio (%)": "86.6", "Number of rRNAs": "1", "Number of tRNAs": "82", "Number of CRISPRs": "15" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Streptomyces xanthochromogenes", "strain": "strain=JCM 4612", "accession": "GCA_014650455.1", "taxid": 67384, "species_taxid": 67384, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2895, "total_fragments": 2899, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Streptomyces violascens", "strain": "strain=JCM 4424", "accession": "GCA_014649955.1", "taxid": 67381, "species_taxid": 67381, "relation_to_type": "type", "validated": true, "ani": 90.0576, "matched_fragments": 1997, "total_fragments": 2899, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces violascens", "strain": "strain=NBRC 12920", "accession": "GCA_020521295.1", "taxid": 67381, "species_taxid": 67381, "relation_to_type": "type", "validated": true, "ani": 89.9528, "matched_fragments": 2009, "total_fragments": 2899, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces melanogenes", "strain": "strain=JCM 4398", "accession": "GCA_014649795.1", "taxid": 67326, "species_taxid": 67326, "relation_to_type": "type", "validated": true, "ani": 84.6909, "matched_fragments": 1720, "total_fragments": 2899, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces purpureus", "strain": "strain=JCM 3172", "accession": "GCA_014648195.1", "taxid": 1951, "species_taxid": 1951, "relation_to_type": "type", "validated": true, "ani": 82.8655, "matched_fragments": 1412, "total_fragments": 2899, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces nymphaeiformis", "strain": "strain=SFB5A", "accession": "GCA_014203895.1", "taxid": 2663842, "species_taxid": 2663842, "relation_to_type": "type", "validated": true, "ani": 82.5494, "matched_fragments": 1511, "total_fragments": 2899, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces silaceus", "strain": "strain=NRRL B-24166", "accession": "GCA_001419745.1", "taxid": 545123, "species_taxid": 545123, "relation_to_type": "type", "validated": true, "ani": 82.4898, "matched_fragments": 1366, "total_fragments": 2899, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces wedmorensis", "strain": "strain=NRRL 3426", "accession": "GCA_000716445.1", "taxid": 43759, "species_taxid": 43759, "relation_to_type": "type", "validated": true, "ani": 82.3587, "matched_fragments": 1472, "total_fragments": 2899, "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": 82.2625, "matched_fragments": 1441, "total_fragments": 2899, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces zhihengii", "strain": "strain=YIM T102", "accession": "GCA_016919245.1", "taxid": 1818004, "species_taxid": 1818004, "relation_to_type": "type", "validated": true, "ani": 82.0547, "matched_fragments": 1458, "total_fragments": 2899, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces durmitorensis", "strain": "strain=MS405", "accession": "GCA_023498005.1", "taxid": 319947, "species_taxid": 319947, "relation_to_type": "type", "validated": true, "ani": 82.0505, "matched_fragments": 1551, "total_fragments": 2899, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces spectabilis", "strain": "strain=KCTC9218", "accession": "GCA_022698305.1", "taxid": 68270, "species_taxid": 68270, "relation_to_type": "type", "validated": true, "ani": 82.0374, "matched_fragments": 1539, "total_fragments": 2899, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces wuyuanensis", "strain": "strain=CGMCC 4.7042", "accession": "GCA_900103455.1", "taxid": 1196353, "species_taxid": 1196353, "relation_to_type": "type", "validated": true, "ani": 82.0223, "matched_fragments": 1408, "total_fragments": 2899, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces sudanensis", "strain": "strain=SD 504", "accession": "GCA_023614315.1", "taxid": 436397, "species_taxid": 436397, "relation_to_type": "type", "validated": true, "ani": 81.9256, "matched_fragments": 1027, "total_fragments": 2899, "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": 81.6577, "matched_fragments": 1205, "total_fragments": 2899, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces spinosus", "strain": "strain=SBTS01", "accession": "GCA_020400655.1", "taxid": 2872623, "species_taxid": 2872623, "relation_to_type": "type", "validated": true, "ani": 81.6231, "matched_fragments": 1399, "total_fragments": 2899, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces aurantiacus", "strain": "strain=NRRL ISP-5412", "accession": "GCA_001418335.1", "taxid": 47760, "species_taxid": 47760, "relation_to_type": "type", "validated": true, "ani": 81.4928, "matched_fragments": 1246, "total_fragments": 2899, "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": 81.443, "matched_fragments": 1265, "total_fragments": 2899, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces caniscabiei", "strain": "strain=NE06-02D", "accession": "GCA_014930365.1", "taxid": 2746961, "species_taxid": 2746961, "relation_to_type": "type", "validated": true, "ani": 81.3847, "matched_fragments": 1391, "total_fragments": 2899, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces thermodiastaticus", "strain": "strain=JCM 4840", "accession": "GCA_014656135.1", "taxid": 44061, "species_taxid": 44061, "relation_to_type": "type", "validated": true, "ani": 81.3186, "matched_fragments": 1159, "total_fragments": 2899, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces thermodiastaticus", "strain": "strain=DSM 40573", "accession": "GCA_021394575.1", "taxid": 44061, "species_taxid": 44061, "relation_to_type": "type", "validated": true, "ani": 81.2458, "matched_fragments": 1165, "total_fragments": 2899, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinacidiphila paucisporea", "strain": "strain=CGMCC 4.2025", "accession": "GCA_900142575.1", "taxid": 310782, "species_taxid": 310782, "relation_to_type": "type", "validated": true, "ani": 79.9484, "matched_fragments": 1152, "total_fragments": 2899, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces zagrosensis", "strain": "strain=CECT 8305", "accession": "GCA_014203645.1", "taxid": 1042984, "species_taxid": 1042984, "relation_to_type": "type", "validated": true, "ani": 79.6309, "matched_fragments": 1055, "total_fragments": 2899, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinacidiphila yeochonensis", "strain": "strain=CN732", "accession": "GCA_000745345.1", "taxid": 89050, "species_taxid": 89050, "relation_to_type": "type", "validated": true, "ani": 79.5014, "matched_fragments": 1093, "total_fragments": 2899, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 5.21, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014650455.1", "gtdb_species": "s__Streptomyces xanthochromogenes", "ani": 100.0, "matched_fragments": 2895, "total_fragments": 2899, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.56", "min_intra_species_ani": "97.90", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.90", "num_clustered_genomes": 3, "status": "conclusive" }, { "accession": "GCF_002803085.1", "gtdb_species": "s__Streptomyces sp002803085", "ani": 93.1434, "matched_fragments": 2349, "total_fragments": 2899, "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_001279695.1", "gtdb_species": "s__Streptomyces sp001279695", "ani": 90.0839, "matched_fragments": 2008, "total_fragments": 2899, "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_014649955.1", "gtdb_species": "s__Streptomyces violascens", "ani": 90.0712, "matched_fragments": 1995, "total_fragments": 2899, "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_003627815.1", "gtdb_species": "s__Streptomyces hundungensis", "ani": 89.5878, "matched_fragments": 2021, "total_fragments": 2899, "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_003324565.1", "gtdb_species": "s__Streptomyces sp003324565", "ani": 89.5479, "matched_fragments": 2056, "total_fragments": 2899, "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_001008345.1", "gtdb_species": "s__Streptomyces showdoensis", "ani": 82.8076, "matched_fragments": 1464, "total_fragments": 2899, "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_013387495.1", "gtdb_species": "s__Streptomyces sp013387495", "ani": 82.3882, "matched_fragments": 1331, "total_fragments": 2899, "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_900103455.1", "gtdb_species": "s__Streptomyces wuyuanensis", "ani": 82.0402, "matched_fragments": 1405, "total_fragments": 2899, "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_016598615.1", "gtdb_species": "s__Streptomyces sp016598615", "ani": 81.5694, "matched_fragments": 1494, "total_fragments": 2899, "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_001418335.1", "gtdb_species": "s__Streptomyces aurantiacus", "ani": 81.4589, "matched_fragments": 1252, "total_fragments": 2899, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.25", "min_intra_species_ani": "99.25", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.97", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_014203845.1", "gtdb_species": "s__Streptomyces scabiei_E", "ani": 81.3799, "matched_fragments": 1338, "total_fragments": 2899, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.38", "min_intra_species_ani": "95.38", "mean_intra_species_af": "0.80", "min_intra_species_af": "0.80", "num_clustered_genomes": 2, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.201, "cell_length": -0.05, "doubling_h": 0.103, "growth_tmp": 27.0, "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", "xanthochromogenes" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }