{ "type": "genome", "identifier": "GCF_018332655.1", "organism": "Actinoplanes auranticolor", "title": "Actinoplanes auranticolor", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Biological Resource Center, National Institute of Technology and Evaluation (NBRC)", "publication": [ {} ], "properties": { "assembly_accession": "GCF_018332655.1", "bioproject": "PRJNA224116", "biosample": "SAMD00278761", "wgs_master": "BOQL00000000.1", "refseq_category": "reference genome", "taxid": "47988", "species_taxid": "47988", "organism_name": "Actinoplanes auranticolor", "infraspecific_name": "strain=NBRC 12245", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2021/03/19", "asm_name": "ASM1833265v1", "asm_submitter": "Biological Resource Center, National Institute of Technology and Evaluation (NBRC)", "gbrs_paired_asm": "GCA_018332655.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/018/332/655/GCF_018332655.1_ASM1833265v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "9878734", "genome_size_ungapped": "9878734", "gc_percent": "71.500000", "replicon_count": "0", "scaffold_count": "142", "contig_count": "142", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_018332655.1-RS_2024_08_04", "annotation_date": "2024-08-04", "total_gene_count": "9295", "protein_coding_gene_count": "9019", "non_coding_gene_count": "73", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2021-03-19", "dateModified": "2021-03-19", "datePublished": "2021-03-19", "_annotation": { "sample_count": 1, "sample_organism": [ "Actinoplanes auranticolor" ], "sample_taxid": [ "47988" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA:Nevada" ], "sample_host_location_id": [], "data_size": "2.652 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "9878734", "Number of Sequences": "142", "Longest Sequences (bp)": "449300", "N50 (bp)": "141324", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "71.5", "Number of CDSs": "9254", "Average Protein Length": "320.4", "Coding Ratio (%)": "90.0", "Number of rRNAs": "2", "Number of tRNAs": "88", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Actinoplanes auranticolor", "strain": "strain=NBRC 12245", "accession": "GCA_018332655.1", "taxid": 47988, "species_taxid": 47988, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 3226, "total_fragments": 3231, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Actinoplanes nipponensis", "strain": "strain=NBRC 14063", "accession": "GCA_016862275.1", "taxid": 135950, "species_taxid": 135950, "relation_to_type": "type", "validated": true, "ani": 88.4723, "matched_fragments": 2122, "total_fragments": 3231, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes digitatis", "strain": "strain=DSM 43149", "accession": "GCA_014205335.1", "taxid": 1868, "species_taxid": 1868, "relation_to_type": "type", "validated": true, "ani": 84.9634, "matched_fragments": 1839, "total_fragments": 3231, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes digitatis", "strain": "strain=NBRC 12512", "accession": "GCA_016862155.1", "taxid": 1868, "species_taxid": 1868, "relation_to_type": "type", "validated": true, "ani": 84.9571, "matched_fragments": 1809, "total_fragments": 3231, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes friuliensis", "strain": "strain=DSM 7358", "accession": "GCA_000494755.1", "taxid": 196914, "species_taxid": 196914, "relation_to_type": "type", "validated": true, "ani": 84.5875, "matched_fragments": 2046, "total_fragments": 3231, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes flavus", "strain": "strain=NEAU-H7", "accession": "GCA_017592555.1", "taxid": 2820290, "species_taxid": 2820290, "relation_to_type": "type", "validated": true, "ani": 80.3231, "matched_fragments": 1530, "total_fragments": 3231, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora phytophila", "strain": "strain=DSM 105363", "accession": "GCA_023656545.1", "taxid": 709888, "species_taxid": 709888, "relation_to_type": "type", "validated": true, "ani": 79.6063, "matched_fragments": 923, "total_fragments": 3231, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora acroterricola", "strain": "strain=5R2A7", "accession": "GCA_003172955.1", "taxid": 2202421, "species_taxid": 2202421, "relation_to_type": "type", "validated": true, "ani": 79.3595, "matched_fragments": 1053, "total_fragments": 3231, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora ferruginea", "strain": "strain=28ISP2-46", "accession": "GCA_013694245.1", "taxid": 2749844, "species_taxid": 2749844, "relation_to_type": "type", "validated": true, "ani": 79.2395, "matched_fragments": 1221, "total_fragments": 3231, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora humida", "strain": "strain=MMS20-R1-14", "accession": "GCA_016901255.1", "taxid": 2809018, "species_taxid": 2809018, "relation_to_type": "type", "validated": true, "ani": 79.145, "matched_fragments": 1222, "total_fragments": 3231, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_018332655.1", "gtdb_species": "s__Actinoplanes auranticolor", "ani": 100.0, "matched_fragments": 3226, "total_fragments": 3231, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Actinoplanes", "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": "GCF_016862275.1", "gtdb_species": "s__Actinoplanes nipponensis", "ani": 88.4477, "matched_fragments": 2126, "total_fragments": 3231, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Actinoplanes", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", 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"N/A", "min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_003002065.1", "gtdb_species": "s__Actinoplanes ferrugineus_A", "ani": 83.3257, "matched_fragments": 1779, "total_fragments": 3231, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Actinoplanes", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.31", "min_intra_species_ani": "99.31", "mean_intra_species_af": "0.94", "min_intra_species_af": "0.94", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_016464385.1", "gtdb_species": "s__Actinoplanes sp016464385", "ani": 83.0836, "matched_fragments": 1839, "total_fragments": 3231, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Actinoplanes", "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_003751945.1", "gtdb_species": "s__Actinoplanes caeruleus", "ani": 82.5903, "matched_fragments": 1543, "total_fragments": 3231, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Actinoplanes", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "99.99", "min_intra_species_ani": "99.99", "mean_intra_species_af": "0.98", "min_intra_species_af": "0.98", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_004217545.1", "gtdb_species": "s__Actinoplanes cinnamomeus", "ani": 81.2004, "matched_fragments": 1343, "total_fragments": 3231, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Actinoplanes", "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_018829635.1", "gtdb_species": "s__Actinoplanes bogorensis", "ani": 80.6707, "matched_fragments": 1624, "total_fragments": 3231, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Actinoplanes", "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": -0.302, "cell_length": 0.0, "doubling_h": null, "growth_tmp": 27.0, "optimum_tmp": 27.203, "optimum_ph": 7.5, "genome_size": 10220628.9, "gc_content": 70.815, "coding_genes": 8199.833, "rRNA16S_genes": 4.5, "tRNA_genes": 63.0, "gram_stain": 1.0, "sporulation": 1.0, "motility": 0.857, "range_salinity": 0.0, "facultative_respiration": 0.0, "anaerobic_respiration": 0.0, "aerobic_respiration": 1.0, "mesophilic_range_tmp": 1.0, "thermophilic_range_tmp": 0.0, "psychrophilic_range_tmp": 0.0, "bacillus_cell_shape": 0.0, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.666, "coccobacillus_cell_shape": 0.333, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Actinoplanes", "auranticolor" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }