{ "type": "genome", "identifier": "GCF_031454295.1", "organism": "Actinoplanes couchii", "title": "Actinoplanes couchii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_031454295.1", "bioproject": "PRJNA224116", "biosample": "SAMN18259630", "wgs_master": "JAVDQL000000000.1", "refseq_category": "reference genome", "taxid": "403638", "species_taxid": "403638", "organism_name": "Actinoplanes couchii", "infraspecific_name": "strain=DSM 45050", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/09/13", "asm_name": "ASM3145429v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_031454295.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/031/454/295/GCF_031454295.1_ASM3145429v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "11621080", "genome_size_ungapped": "11621080", "gc_percent": "70.000000", "replicon_count": "0", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_031454295.1-RS_2024_09_15", "annotation_date": "2024-09-15", "total_gene_count": "10625", "protein_coding_gene_count": "10376", "non_coding_gene_count": "100", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2023-09-13", "dateModified": "2023-09-13", "datePublished": "2023-09-13", "_annotation": { "sample_count": 1, "sample_organism": [ "Actinoplanes couchii" ], "sample_taxid": [ "403638" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "Italy" ], "sample_host_location_id": [], "data_size": "3.114 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "11621080", "Number of Sequences": "1", "Longest Sequences (bp)": "11621080", "N50 (bp)": "11621080", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "70.1", "Number of CDSs": "10711", "Average Protein Length": "327.8", "Coding Ratio (%)": "90.6", "Number of rRNAs": "17", "Number of tRNAs": "99", "Number of CRISPRs": "5" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Actinoplanes derwentensis", "strain": "strain=NBRC 14935", "accession": "GCA_016862135.1", "taxid": 113562, "species_taxid": 113562, "relation_to_type": "type", "validated": true, "ani": 87.8076, "matched_fragments": 2522, "total_fragments": 3873, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes derwentensis", "strain": "strain=DSM 43941", "accession": "GCA_900104725.1", "taxid": 113562, "species_taxid": 113562, "relation_to_type": "type", "validated": true, "ani": 87.7342, "matched_fragments": 2576, "total_fragments": 3873, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes utahensis", "strain": "strain=NBRC 13244", "accession": "GCA_016862455.1", "taxid": 1869, "species_taxid": 1869, "relation_to_type": "type", "validated": true, "ani": 84.401, "matched_fragments": 2009, "total_fragments": 3873, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes philippinensis", "strain": "strain=NBRC 13878", "accession": "GCA_016862335.1", "taxid": 35752, "species_taxid": 35752, "relation_to_type": "type", "validated": true, "ani": 84.2695, "matched_fragments": 2226, "total_fragments": 3873, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes philippinensis", "strain": "strain=DSM 43019", "accession": "GCA_900113015.1", "taxid": 35752, "species_taxid": 35752, "relation_to_type": "type", "validated": true, "ani": 84.226, "matched_fragments": 2236, "total_fragments": 3873, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes xinjiangensis", "strain": "strain=DSM 45184", "accession": "GCA_003148685.1", "taxid": 512350, "species_taxid": 512350, "relation_to_type": "type", "validated": true, "ani": 84.0378, "matched_fragments": 2183, "total_fragments": 3873, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes lobatus", "strain": "strain=NBRC 12513", "accession": "GCA_016862255.1", "taxid": 113568, "species_taxid": 113568, "relation_to_type": "type", "validated": true, "ani": 83.9162, "matched_fragments": 2043, "total_fragments": 3873, "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": 83.9115, "matched_fragments": 2016, "total_fragments": 3873, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes lobatus", "strain": "strain=DSM 43150", "accession": "GCA_014205215.1", "taxid": 113568, "species_taxid": 113568, "relation_to_type": "type", "validated": true, "ani": 83.8308, "matched_fragments": 2126, "total_fragments": 3873, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes lobatus", "strain": "strain=JCM 3061", "accession": "GCA_014647815.1", "taxid": 113568, "species_taxid": 113568, "relation_to_type": "type", "validated": true, "ani": 83.8163, "matched_fragments": 2097, "total_fragments": 3873, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes italicus", "strain": "strain=NBRC 13911", "accession": "GCA_016862235.1", "taxid": 113567, "species_taxid": 113567, "relation_to_type": "type", "validated": true, "ani": 83.7458, "matched_fragments": 2190, "total_fragments": 3873, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes italicus", "strain": "strain=DSM 43146", "accession": "GCA_003001815.1", "taxid": 113567, "species_taxid": 113567, "relation_to_type": "type", "validated": true, "ani": 83.6831, "matched_fragments": 2216, "total_fragments": 3873, "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": 78.5657, "matched_fragments": 976, "total_fragments": 3873, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dactylosporangium roseum", "strain": "strain=NRRL B-16295", "accession": "GCA_025264685.1", "taxid": 47989, "species_taxid": 47989, "relation_to_type": "type", "validated": true, "ani": 77.3294, "matched_fragments": 933, "total_fragments": 3873, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dactylosporangium aurantiacum", "strain": "strain=NRRL B-8018", "accession": "GCA_025264705.1", "taxid": 35754, "species_taxid": 35754, "relation_to_type": "type", "validated": true, "ani": 77.2608, "matched_fragments": 1398, "total_fragments": 3873, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dactylosporangium fulvum", "strain": "strain=NRRL B-16292", "accession": "GCA_025137375.1", "taxid": 53359, "species_taxid": 53359, "relation_to_type": "type", "validated": true, "ani": 77.1929, "matched_fragments": 1131, "total_fragments": 3873, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_016862075.1", "gtdb_species": "s__Actinoplanes couchii", "ani": 99.9488, "matched_fragments": 3714, "total_fragments": 3873, "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_900104725.1", "gtdb_species": "s__Actinoplanes derwentensis", "ani": 87.7418, "matched_fragments": 2572, "total_fragments": 3873, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Actinoplanes", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_016862455.1", "gtdb_species": "s__Actinoplanes 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"ani": 84.0242, "matched_fragments": 2186, "total_fragments": 3873, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Actinoplanes", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "1.00", "min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_017592555.1", "gtdb_species": "s__Actinoplanes sp017592555", "ani": 83.9186, "matched_fragments": 2015, "total_fragments": 3873, "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_014205215.1", "gtdb_species": "s__Actinoplanes lobatus", "ani": 83.8295, 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1279, "total_fragments": 3873, "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": "-" } ] }, "_bac2feature": { "phenotypes": null, "cell_diameter": -0.088, "cell_length": 0.194, "doubling_h": null, "growth_tmp": 28.0, "optimum_tmp": 27.5, "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", "couchii" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }