{ "type": "genome", "identifier": "GCF_012034235.1", "organism": "Streptomyces thermoviolaceus subsp. thermoviolaceus", "title": "Streptomyces thermoviolaceus subsp. thermoviolaceus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "King Mongkut's Institute of Technology Ladkrabang", "publication": [ {} ], "properties": { "assembly_accession": "GCF_012034235.1", "bioproject": "PRJNA224116", "biosample": "SAMN14423144", "wgs_master": "JAATEL000000000.1", "refseq_category": "na", "taxid": "66860", "species_taxid": "1952", "organism_name": "Streptomyces thermoviolaceus subsp. thermoviolaceus", "infraspecific_name": "strain=NBRC 13905", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/04/05", "asm_name": "ASM1203423v1", "asm_submitter": "King Mongkut's Institute of Technology Ladkrabang", "gbrs_paired_asm": "GCA_012034235.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/012/034/235/GCF_012034235.1_ASM1203423v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "5890236", "genome_size_ungapped": "5890236", "gc_percent": "72.500000", "replicon_count": "0", "scaffold_count": "85", "contig_count": "85", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_012034235.1-RS_2024_03_29", "annotation_date": "2024-03-29", "total_gene_count": "5169", "protein_coding_gene_count": "4940", "non_coding_gene_count": "77", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-04-05", "dateModified": "2020-04-05", "datePublished": "2020-04-05", "_annotation": { "sample_count": 1, "sample_organism": [ "Streptomyces thermoviolaceus subsp. thermoviolaceus" ], "sample_taxid": [ "66860" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Thailand: Bangkok" ], "sample_host_location_id": [], "data_size": "1.573 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)": "5890236", "Number of Sequences": "85", "Longest Sequences (bp)": "393632", "N50 (bp)": "183806", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "72.6", "Number of CDSs": "5200", "Average Protein Length": "319.8", "Coding Ratio (%)": "84.7", "Number of rRNAs": "1", "Number of tRNAs": "90", "Number of CRISPRs": "7" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Streptomyces thermoviolaceus subsp. thermoviolaceus", "strain": "strain=NBRC 13905", "accession": "GCA_012034235.1", "taxid": 66860, "species_taxid": 1952, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1929, "total_fragments": 1931, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Streptomyces thermoviolaceus subsp. thermoviolaceus", "strain": "strain=JCM 4843", "accession": "GCA_014650975.1", "taxid": 66860, "species_taxid": 1952, "relation_to_type": "type", "validated": true, "ani": 99.9977, "matched_fragments": 1905, "total_fragments": 1931, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Streptomyces thermoviolaceus subsp. apingens", "strain": "strain=JCM 4312", "accession": "GCA_014649255.1", "taxid": 66859, "species_taxid": 1952, "relation_to_type": "type", "validated": true, "ani": 99.8053, "matched_fragments": 1901, "total_fragments": 1931, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Streptomyces thermodiastaticus", "strain": "strain=DSM 40573", "accession": "GCA_021394575.1", "taxid": 44061, "species_taxid": 44061, "relation_to_type": "type", "validated": true, "ani": 95.3552, "matched_fragments": 1728, "total_fragments": 1931, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Streptomyces thermodiastaticus", "strain": "strain=JCM 4840", "accession": "GCA_014656135.1", "taxid": 44061, "species_taxid": 44061, "relation_to_type": "type", "validated": true, "ani": 95.3519, "matched_fragments": 1721, "total_fragments": 1931, "ani_threshold": 95, "status": "inconclusive" }, { "organism_name": "Streptomyces sennicomposti", "strain": "strain=RCPT1-4", "accession": "GCA_019890635.1", "taxid": 2873384, "species_taxid": 2873384, "relation_to_type": "type", "validated": true, "ani": 86.1527, "matched_fragments": 1403, "total_fragments": 1931, "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": 84.7423, "matched_fragments": 1205, "total_fragments": 1931, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces griseicoloratus", "strain": "strain=TRM S81-3", "accession": "GCA_014534645.1", "taxid": 2752516, "species_taxid": 2752516, "relation_to_type": "type", "validated": true, "ani": 84.5278, "matched_fragments": 1381, "total_fragments": 1931, "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": 84.376, "matched_fragments": 1395, "total_fragments": 1931, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 1.04, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014656135.1", "gtdb_species": "s__Streptomyces thermodiastaticus", "ani": 95.3564, "matched_fragments": 1721, "total_fragments": 1931, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.31", "min_intra_species_ani": "95.26", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.88", "num_clustered_genomes": 5, "status": "conclusive" }, { "accession": "GCF_902506575.1", "gtdb_species": "s__Streptomyces mexicanus", "ani": 89.4983, "matched_fragments": 1584, "total_fragments": 1931, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.95", "min_intra_species_ani": "96.19", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.78", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_014654675.1", "gtdb_species": "s__Streptomyces spiralis", "ani": 86.4136, "matched_fragments": 1520, "total_fragments": 1931, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.07", "min_intra_species_ani": "98.07", "mean_intra_species_af": "0.87", "min_intra_species_af": "0.87", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_000383935.1", "gtdb_species": "s__Streptomyces sp000383935", "ani": 86.1398, "matched_fragments": 1483, "total_fragments": 1931, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.62", "min_intra_species_ani": "97.70", "mean_intra_species_af": "0.92", "min_intra_species_af": "0.84", "num_clustered_genomes": 4, "status": "-" }, { "accession": "GCF_002154505.1", "gtdb_species": "s__Streptomyces carpinensis", "ani": 86.0741, "matched_fragments": 1342, "total_fragments": 1931, "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_013364255.1", "gtdb_species": "s__Streptomyces seoulensis_A", "ani": 85.9234, "matched_fragments": 1483, "total_fragments": 1931, "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_000720185.1", "gtdb_species": "s__Streptomyces sp000720185", "ani": 85.8718, "matched_fragments": 1499, "total_fragments": 1931, "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_014650655.1", "gtdb_species": "s__Streptomyces anandii", "ani": 85.7541, "matched_fragments": 1453, "total_fragments": 1931, "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_014650575.1", "gtdb_species": "s__Streptomyces naganishii", "ani": 85.6783, "matched_fragments": 1450, "total_fragments": 1931, "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_002155915.1", "gtdb_species": "s__Streptomyces thermovulgaris", "ani": 85.55, "matched_fragments": 1147, "total_fragments": 1931, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.61", "min_intra_species_ani": "99.61", "mean_intra_species_af": "0.95", "min_intra_species_af": "0.95", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_014651135.1", "gtdb_species": "s__Streptomyces echinoruber", "ani": 84.9106, "matched_fragments": 1357, "total_fragments": 1931, "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_001013905.1", "gtdb_species": "s__Streptomyces leeuwenhoekii", "ani": 84.5444, "matched_fragments": 1364, "total_fragments": 1931, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 96.603, "mean_intra_species_ani": "99.67", "min_intra_species_ani": "99.36", "mean_intra_species_af": "0.97", "min_intra_species_af": "0.94", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_002155905.1", "gtdb_species": "s__Streptomyces tricolor", "ani": 84.4962, "matched_fragments": 1189, "total_fragments": 1931, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.81", "min_intra_species_ani": "98.00", "mean_intra_species_af": "0.86", "min_intra_species_af": "0.72", "num_clustered_genomes": 5, "status": "-" }, { "accession": "GCF_000761215.1", "gtdb_species": "s__Streptomyces glaucescens", "ani": 84.2932, "matched_fragments": 1330, "total_fragments": 1931, "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_001905845.1", "gtdb_species": "s__Streptomyces sp001905845", "ani": 84.156, "matched_fragments": 1364, "total_fragments": 1931, "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_014656015.1", "gtdb_species": "s__Streptomyces griseoaurantiacus", "ani": 83.4199, "matched_fragments": 1278, "total_fragments": 1931, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.09", "min_intra_species_ani": "98.94", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.90", "num_clustered_genomes": 5, "status": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.201, "cell_length": -0.05, "doubling_h": 0.103, "growth_tmp": 46.0, "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": 1.0, "motility": 0.0, "range_salinity": 0.666, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 0.98, "thermophilic_range_tmp": 0.019, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 1.0, "coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Streptomyces", "thermoviolaceus", "subsp.", "thermoviolaceus" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }