{ "type": "genome", "identifier": "GCF_000721705.1", "organism": "Actinoplanes subtropicus", "title": "Actinoplanes subtropicus", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University of Illinois", "publication": [ {} ], "properties": { "assembly_accession": "GCF_000721705.1", "bioproject": "PRJNA224116", "biosample": "SAMN02645318", "wgs_master": "JOJL00000000.1", "refseq_category": "reference genome", "taxid": "543632", "species_taxid": "543632", "organism_name": "Actinoplanes subtropicus", "infraspecific_name": "strain=NRRL B-24665", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2014/07/02", "asm_name": "ASM72170v1", "asm_submitter": "University of Illinois", "gbrs_paired_asm": "GCA_000721705.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/721/705/GCF_000721705.1_ASM72170v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "11257336", "genome_size_ungapped": "11257336", "gc_percent": "71.000000", "replicon_count": "0", "scaffold_count": "216", "contig_count": "216", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_000721705.1-RS_2024_05_02", "annotation_date": "2024-05-02", "total_gene_count": "10462", "protein_coding_gene_count": "10208", "non_coding_gene_count": "78", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2014-07-02", "dateModified": "2014-07-02", "datePublished": "2014-07-02", "_annotation": { "sample_count": 1, "sample_organism": [ "Actinoplanes subtropicus" ], "sample_taxid": [ "543632" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "South Korea: Mara Island, Jeju" ], "sample_host_location_id": [], "data_size": "3.021 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)": "11257336", "Number of Sequences": "216", "Longest Sequences (bp)": "601616", "N50 (bp)": "239119", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "71.2", "Number of CDSs": "10510", "Average Protein Length": "321.2", "Coding Ratio (%)": "90.0", "Number of rRNAs": "2", "Number of tRNAs": "92", "Number of CRISPRs": "3" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Actinoplanes subtropicus", "strain": "strain=NRRL B-24665", "accession": "GCA_000721705.1", "taxid": 543632, "species_taxid": 543632, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 3659, "total_fragments": 3674, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Actinoplanes globisporus", "strain": "strain=DSM 43857", "accession": "GCA_000379645.1", "taxid": 113565, "species_taxid": 113565, "relation_to_type": "type", "validated": true, "ani": 86.208, "matched_fragments": 2351, "total_fragments": 3674, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes durhamensis", "strain": "strain=NBRC 14914", "accession": "GCA_016862175.1", "taxid": 113563, "species_taxid": 113563, "relation_to_type": "type", "validated": true, "ani": 83.7457, "matched_fragments": 2075, "total_fragments": 3674, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes tereljensis", "strain": "strain=NBRC 105297", "accession": "GCA_016862435.1", "taxid": 571912, "species_taxid": 571912, "relation_to_type": "type", "validated": true, "ani": 83.5784, "matched_fragments": 2065, "total_fragments": 3674, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes toevensis", "strain": "strain=NBRC 105298", "accession": "GCA_018332695.1", "taxid": 571911, "species_taxid": 571911, "relation_to_type": "type", "validated": true, "ani": 83.5446, "matched_fragments": 2042, "total_fragments": 3674, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes ferrugineus", "strain": "strain=NBRC 15555", "accession": "GCA_016862195.1", "taxid": 113564, "species_taxid": 113564, "relation_to_type": "type", "validated": true, "ani": 82.7752, "matched_fragments": 1849, "total_fragments": 3674, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes deccanensis", "strain": "strain=NBRC 13994", "accession": "GCA_016862115.1", "taxid": 113561, "species_taxid": 113561, "relation_to_type": "type", "validated": true, "ani": 81.9704, "matched_fragments": 1827, "total_fragments": 3674, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes lichenicola", "strain": "strain=LDG1-01", "accession": "GCA_016785085.1", "taxid": 2802976, "species_taxid": 2802976, "relation_to_type": "type", "validated": true, "ani": 81.8548, "matched_fragments": 1827, "total_fragments": 3674, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes octamycinicus", "strain": "strain=DSM 45809", "accession": "GCA_014205225.1", "taxid": 135948, "species_taxid": 135948, "relation_to_type": "type", "validated": true, "ani": 81.2513, "matched_fragments": 1806, "total_fragments": 3674, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes octamycinicus", "strain": "strain=NBRC 14524", "accession": "GCA_016862295.1", "taxid": 135948, "species_taxid": 135948, "relation_to_type": "type", "validated": true, "ani": 81.2322, "matched_fragments": 1760, "total_fragments": 3674, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes teichomyceticus", "strain": "strain=NBRC 13999", "accession": "GCA_016862415.1", "taxid": 1867, "species_taxid": 1867, "relation_to_type": "type", "validated": true, "ani": 81.2008, "matched_fragments": 1525, "total_fragments": 3674, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes teichomyceticus", "strain": "strain=DSM 43866", "accession": "GCA_007829915.1", "taxid": 1867, "species_taxid": 1867, "relation_to_type": "type", "validated": true, "ani": 81.1568, "matched_fragments": 1571, "total_fragments": 3674, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes teichomyceticus", "strain": "strain=ATCC 31121", "accession": "GCA_003711105.1", "taxid": 1867, "species_taxid": 1867, "relation_to_type": "type", "validated": true, "ani": 81.1534, "matched_fragments": 1581, "total_fragments": 3674, "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": 80.5212, "matched_fragments": 1629, "total_fragments": 3674, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes derwentensis", "strain": "strain=NBRC 14935", "accession": "GCA_016862135.1", "taxid": 113562, "species_taxid": 113562, "relation_to_type": "type", "validated": true, "ani": 79.911, "matched_fragments": 1500, "total_fragments": 3674, "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": 79.9052, "matched_fragments": 1510, "total_fragments": 3674, "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": 78.8584, "matched_fragments": 1206, "total_fragments": 3674, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora sediminicola", "strain": "strain=DSM 45794", "accession": "GCA_900089585.1", "taxid": 946078, "species_taxid": 946078, "relation_to_type": "type", "validated": true, "ani": 78.7969, "matched_fragments": 1223, "total_fragments": 3674, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora halophytica", "strain": "strain=DSM 43171", "accession": "GCA_900090245.1", "taxid": 47864, "species_taxid": 47864, "relation_to_type": "type", "validated": true, "ani": 78.582, "matched_fragments": 1104, "total_fragments": 3674, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora rifamycinica", "strain": "strain=DSM 44983", "accession": "GCA_900090265.1", "taxid": 291594, "species_taxid": 291594, "relation_to_type": "type", "validated": true, "ani": 78.5215, "matched_fragments": 1127, "total_fragments": 3674, "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": 78.509, "matched_fragments": 1177, "total_fragments": 3674, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora echinofusca", "strain": "strain=DSM 43913", "accession": "GCA_900091445.1", "taxid": 47858, "species_taxid": 47858, "relation_to_type": "type", "validated": true, "ani": 78.4745, "matched_fragments": 1141, "total_fragments": 3674, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora phaseoli", "strain": "strain=NBRC 110907", "accession": "GCA_016863675.1", "taxid": 1144548, "species_taxid": 1144548, "relation_to_type": "type", "validated": true, "ani": 78.42, "matched_fragments": 1003, "total_fragments": 3674, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Amycolatopsis thermalba", "strain": "strain=NRRL B-24845", "accession": "GCA_003385215.1", "taxid": 944492, "species_taxid": 944492, "relation_to_type": "type", "validated": true, "ani": 76.2173, "matched_fragments": 786, "total_fragments": 3674, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Marmoricola aequoreus", "strain": "strain=NRRL B-24464", "accession": "GCA_000720335.1", "taxid": 397278, "species_taxid": 397278, "relation_to_type": "type", "validated": true, "ani": 76.129, "matched_fragments": 562, "total_fragments": 3674, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinomadura parmotrematis", "strain": "strain=PM05-2", "accession": "GCA_019458805.1", "taxid": 2864039, "species_taxid": 2864039, "relation_to_type": "type", "validated": true, "ani": 75.9584, "matched_fragments": 1034, "total_fragments": 3674, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 4.17, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000721705.1", "gtdb_species": "s__Actinoplanes subtropicus", "ani": 100.0, "matched_fragments": 3659, "total_fragments": 3674, "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_000379645.1", "gtdb_species": "s__Actinoplanes globisporus", "ani": 86.2938, "matched_fragments": 2334, "total_fragments": 3674, "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_016862175.1", "gtdb_species": "s__Actinoplanes durhamensis", "ani": 83.7752, "matched_fragments": 2069, "total_fragments": 3674, "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_018332695.1", "gtdb_species": "s__Actinoplanes toevensis", "ani": 83.5992, "matched_fragments": 2030, "total_fragments": 3674, "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_016862435.1", "gtdb_species": "s__Actinoplanes tereljensis", "ani": 83.5833, "matched_fragments": 2064, "total_fragments": 3674, "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_016862195.1", "gtdb_species": "s__Actinoplanes ferrugineus", "ani": 82.7457, "matched_fragments": 1856, "total_fragments": 3674, "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_016785085.1", "gtdb_species": "s__Actinoplanes sp016785085", "ani": 81.8131, "matched_fragments": 1838, "total_fragments": 3674, "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_014204895.1", "gtdb_species": "s__Actinoplanes abujensis", "ani": 81.7247, "matched_fragments": 1732, "total_fragments": 3674, "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": 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"min_intra_species_af": "1.00", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_016862395.1", "gtdb_species": "s__Actinoplanes siamensis", "ani": 81.1781, "matched_fragments": 1491, "total_fragments": 3674, "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_003711105.1", "gtdb_species": "s__Actinoplanes teichomyceticus", "ani": 81.1727, "matched_fragments": 1577, "total_fragments": 3674, "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": "99.99", "mean_intra_species_af": "1.00", "min_intra_species_af": 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