{ "type": "genome", "identifier": "GCF_014648775.1", "organism": "Streptomyces abikoensis", "title": "Streptomyces abikoensis", "description": "na", "data type": "Genome sequencing and assembly", "organization": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "publication": [ {} ], "properties": { "assembly_accession": "GCF_014648775.1", "bioproject": "PRJNA224116", "biosample": "SAMD00245379", "wgs_master": "BMRT00000000.1", "refseq_category": "reference genome", "taxid": "97398", "species_taxid": "97398", "organism_name": "Streptomyces abikoensis", "infraspecific_name": "strain=JCM 4002", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/09/12", "asm_name": "ASM1464877v1", "asm_submitter": "WFCC-MIRCEN World Data Centre for Microorganisms (WDCM)", "gbrs_paired_asm": "GCA_014648775.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/014/648/775/GCF_014648775.1_ASM1464877v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "7000866", "genome_size_ungapped": "7000866", "gc_percent": "72.000000", "replicon_count": "0", "scaffold_count": "30", "contig_count": "30", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_014648775.1-RS_2024_09_02", "annotation_date": "2024-09-02", "total_gene_count": "6263", "protein_coding_gene_count": "6070", "non_coding_gene_count": "89", "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 abikoensis" ], "sample_taxid": [ "97398" ], "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": "1.869 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)": "7000866", "Number of Sequences": "30", "Longest Sequences (bp)": "1606033", "N50 (bp)": "785131", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "72.2", "Number of CDSs": "6283", "Average Protein Length": "331.6", "Coding Ratio (%)": "89.3", "Number of rRNAs": "1", "Number of tRNAs": "97", "Number of CRISPRs": "10" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Streptomyces abikoensis", "strain": "strain=JCM 4002", "accession": "GCA_014648775.1", "taxid": 97398, "species_taxid": 97398, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2316, "total_fragments": 2317, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Streptomyces griseocarneus", "strain": "strain=CGMCC4.1088", "accession": "GCA_020093395.1", "taxid": 51201, "species_taxid": 51201, "relation_to_type": "type", "validated": true, "ani": 86.7775, "matched_fragments": 1564, "total_fragments": 2317, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces griseocarneus", "strain": "strain=JCM 4580", "accession": "GCA_014655595.1", "taxid": 51201, "species_taxid": 51201, "relation_to_type": "type", "validated": true, "ani": 86.712, "matched_fragments": 1578, "total_fragments": 2317, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces olivoverticillatus", "strain": "strain=CECT 3266", "accession": "GCA_014203555.1", "taxid": 66427, "species_taxid": 66427, "relation_to_type": "type", "validated": true, "ani": 86.3936, "matched_fragments": 1403, "total_fragments": 2317, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces mashuensis", "strain": "strain=JCM 4059", "accession": "GCA_014654785.1", "taxid": 33904, "species_taxid": 33904, "relation_to_type": "type", "validated": true, "ani": 85.0861, "matched_fragments": 1526, "total_fragments": 2317, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces morookaense", "strain": "strain=DSM 40503", "accession": "GCA_013030945.1", "taxid": 1970, "species_taxid": 1970, "relation_to_type": "type", "validated": true, "ani": 84.9525, "matched_fragments": 1528, "total_fragments": 2317, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces morookaense", "strain": "strain=JCM 4793", "accession": "GCA_014656115.1", "taxid": 1970, "species_taxid": 1970, "relation_to_type": "type", "validated": true, "ani": 84.9279, "matched_fragments": 1581, "total_fragments": 2317, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces albireticuli", "strain": "strain=NRRL B1670", "accession": "GCA_021228125.1", "taxid": 1940, "species_taxid": 1940, "relation_to_type": "type", "validated": true, "ani": 84.8757, "matched_fragments": 1570, "total_fragments": 2317, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces roseifaciens", "strain": "strain=MBT76", "accession": "GCA_001445655.1", "taxid": 1488406, "species_taxid": 1488406, "relation_to_type": "type", "validated": true, "ani": 84.8664, "matched_fragments": 1569, "total_fragments": 2317, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces hiroshimensis", "strain": "strain=JCM 4586", "accession": "GCA_014650335.1", "taxid": 66424, "species_taxid": 66424, "relation_to_type": "type", "validated": true, "ani": 84.7528, "matched_fragments": 1551, "total_fragments": 2317, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces huiliensis", "strain": "strain=SCA2-4", "accession": "GCA_020037025.1", "taxid": 2876027, "species_taxid": 2876027, "relation_to_type": "type", "validated": true, "ani": 83.785, "matched_fragments": 1337, "total_fragments": 2317, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces formicae", "strain": "strain=1H-GS9", "accession": "GCA_022647665.1", "taxid": 1616117, "species_taxid": 1616117, "relation_to_type": "type", "validated": true, "ani": 81.4253, "matched_fragments": 1187, "total_fragments": 2317, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces glomeratus", "strain": "strain=DSM 41457", "accession": "GCA_021462825.1", "taxid": 284452, "species_taxid": 284452, "relation_to_type": "type", "validated": true, "ani": 80.9175, "matched_fragments": 1091, "total_fragments": 2317, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces ferrugineus", "strain": "strain=CCTCC AA2014009", "accession": "GCA_015160855.1", "taxid": 1413221, "species_taxid": 1413221, "relation_to_type": "type", "validated": true, "ani": 80.6957, "matched_fragments": 1210, "total_fragments": 2317, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 9.38, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_014648775.1", "gtdb_species": "s__Streptomyces abikoensis", "ani": 100.0, "matched_fragments": 2316, "total_fragments": 2317, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "96.57", "min_intra_species_ani": "96.57", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.89", "num_clustered_genomes": 2, "status": "conclusive" }, { "accession": "GCA_000715685.1", "gtdb_species": "s__Streptomyces lilacinus", "ani": 87.2324, "matched_fragments": 1613, "total_fragments": 2317, "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_014650495.1", "gtdb_species": "s__Streptomyces cinnamoneus", "ani": 86.7822, "matched_fragments": 1603, "total_fragments": 2317, "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_014655595.1", "gtdb_species": "s__Streptomyces griseocarneus", "ani": 86.778, "matched_fragments": 1569, "total_fragments": 2317, "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_017349075.1", "gtdb_species": "s__Streptomyces triculaminicus_A", "ani": 86.5708, "matched_fragments": 1599, "total_fragments": 2317, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.73", "min_intra_species_ani": "99.73", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 3, "status": "-" }, { "accession": "GCF_014203555.1", "gtdb_species": "s__Streptomyces olivoverticillatus", "ani": 86.3661, "matched_fragments": 1407, "total_fragments": 2317, "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_002939475.1", "gtdb_species": "s__Streptomyces cinnamoneus_A", "ani": 86.2698, "matched_fragments": 1553, "total_fragments": 2317, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_014654785.1", "gtdb_species": "s__Streptomyces mashuensis", "ani": 85.1289, "matched_fragments": 1519, "total_fragments": 2317, "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_013030945.1", "gtdb_species": "s__Streptomyces morookaense", "ani": 84.9678, "matched_fragments": 1526, "total_fragments": 2317, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.99", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_003011965.1", "gtdb_species": "s__Streptomyces nondiastaticus", "ani": 84.9538, "matched_fragments": 1484, "total_fragments": 2317, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.2548, "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_001445655.1", "gtdb_species": "s__Streptomyces roseifaciens", "ani": 84.8323, "matched_fragments": 1573, "total_fragments": 2317, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Streptomycetales;f__Streptomycetaceae;g__Streptomyces", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "95.65", "min_intra_species_ani": "95.65", "mean_intra_species_af": "0.88", "min_intra_species_af": "0.88", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_014650335.1", "gtdb_species": "s__Streptomyces hiroshimensis", "ani": 84.7291, "matched_fragments": 1555, "total_fragments": 2317, "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_003674045.1", "gtdb_species": "s__Streptomyces griseocarneus_A", "ani": 84.3261, "matched_fragments": 1524, "total_fragments": 2317, "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_000720325.1", "gtdb_species": "s__Streptomyces sp000720325", "ani": 80.9894, "matched_fragments": 1293, "total_fragments": 2317, "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_018638295.1", "gtdb_species": "s__Streptomyces sp018638295", "ani": 80.9374, "matched_fragments": 1071, "total_fragments": 2317, "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_015160855.1", "gtdb_species": "s__Streptomyces ferrugineus", "ani": 80.7183, "matched_fragments": 1205, "total_fragments": 2317, "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": 28.0, "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": 0.0, "aerobic_respiration": 1.0, "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", "abikoensis" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }