{ "type": "genome", "identifier": "GCF_031458255.1", "organism": "Catenuloplanes niger", "title": "Catenuloplanes niger", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_031458255.1", "bioproject": "PRJNA224116", "biosample": "SAMN18243581", "wgs_master": "JAVDYC000000000.1", "refseq_category": "reference genome", "taxid": "587534", "species_taxid": "587534", "organism_name": "Catenuloplanes niger", "infraspecific_name": "strain=DSM 44711", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2023/09/13", "asm_name": "ASM3145825v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_031458255.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/031/458/255/GCF_031458255.1_ASM3145825v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "9742698", "genome_size_ungapped": "9742698", "gc_percent": "72.500000", "replicon_count": "0", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_031458255.1-RS_2024_09_15", "annotation_date": "2024-09-15", "total_gene_count": "8592", "protein_coding_gene_count": "8388", "non_coding_gene_count": "88", "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": [ "Catenuloplanes niger" ], "sample_taxid": [ "587534" ], "sample_host_organism": [ "not applicable" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "2.566 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)": "9742698", "Number of Sequences": "1", "Longest Sequences (bp)": "9742698", "N50 (bp)": "9742698", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "72.6", "Number of CDSs": "8670", "Average Protein Length": "334.7", "Coding Ratio (%)": "89.4", "Number of rRNAs": "15", "Number of tRNAs": "95", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Micromonospora pattaloongensis", "strain": "strain=DSM 45245", "accession": "GCA_900107255.1", "taxid": 405436, "species_taxid": 405436, "relation_to_type": "type", "validated": true, "ani": 79.3817, "matched_fragments": 1026, "total_fragments": 3247, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora chalcea", "strain": "strain=DSM 43026", "accession": "GCA_002926165.1", "taxid": 1874, "species_taxid": 1874, "relation_to_type": "type", "validated": true, "ani": 79.3495, "matched_fragments": 1213, "total_fragments": 3247, "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": 79.2591, "matched_fragments": 1067, "total_fragments": 3247, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora aurantiaca", "strain": "strain=ATCC 27029", "accession": "GCA_000145235.1", "taxid": 47850, "species_taxid": 47850, "relation_to_type": "type", "validated": true, "ani": 79.2509, "matched_fragments": 1298, "total_fragments": 3247, "ani_threshold": 95, "status": "below_threshold" 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mirobrigensis", "strain": "strain=DSM 44830", "accession": "GCA_900091555.1", "taxid": 262898, "species_taxid": 262898, "relation_to_type": "type", "validated": true, "ani": 79.1636, "matched_fragments": 1158, "total_fragments": 3247, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora kangleipakensis", "strain": "strain=DSM 45612", "accession": "GCA_004217615.1", "taxid": 1077942, "species_taxid": 1077942, "relation_to_type": "type", "validated": true, "ani": 79.146, "matched_fragments": 1179, "total_fragments": 3247, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora chersina", "strain": "strain=DSM 44151", "accession": "GCA_900091475.1", "taxid": 47854, "species_taxid": 47854, "relation_to_type": "type", "validated": true, "ani": 79.1359, "matched_fragments": 1223, "total_fragments": 3247, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora fulviviridis", "strain": "strain=JCM 3259", "accession": "GCA_014648395.1", "taxid": 47860, "species_taxid": 47860, "relation_to_type": "type", "validated": true, "ani": 79.0854, "matched_fragments": 1245, "total_fragments": 3247, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora endolithica", "strain": "strain=DSM 44398", "accession": "GCA_007994185.1", "taxid": 230091, "species_taxid": 230091, "relation_to_type": "type", "validated": true, "ani": 79.0798, "matched_fragments": 1150, "total_fragments": 3247, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora endolithica", "strain": "strain=JCM 12677", "accession": "GCA_003626595.1", "taxid": 230091, "species_taxid": 230091, "relation_to_type": "type", "validated": true, "ani": 79.0229, "matched_fragments": 1155, "total_fragments": 3247, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora eburnea", "strain": "strain=DSM 44814", "accession": "GCA_900090225.1", "taxid": 227316, "species_taxid": 227316, "relation_to_type": "type", "validated": true, "ani": 78.9808, "matched_fragments": 1161, "total_fragments": 3247, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora saelicesensis", "strain": "strain=DSM 44871", "accession": "GCA_900091575.1", "taxid": 285676, "species_taxid": 285676, "relation_to_type": "type", "validated": true, "ani": 78.8288, "matched_fragments": 1138, "total_fragments": 3247, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes nipponensis", "strain": "strain=NBRC 14063", "accession": "GCA_016862275.1", "taxid": 135950, "species_taxid": 135950, "relation_to_type": "type", "validated": true, "ani": 78.753, "matched_fragments": 1433, "total_fragments": 3247, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes ianthinogenes", "strain": "strain=NBRC 13996", "accession": "GCA_018324205.1", "taxid": 122358, "species_taxid": 122358, "relation_to_type": "type", "validated": true, "ani": 78.6516, "matched_fragments": 1458, "total_fragments": 3247, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes ianthinogenes", "strain": "strain=JCM 3249", "accession": "GCA_014648375.1", "taxid": 122358, "species_taxid": 122358, "relation_to_type": "type", "validated": true, "ani": 78.6196, "matched_fragments": 1442, "total_fragments": 3247, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phytohabitans suffuscus", "strain": "strain=NBRC 105367", "accession": "GCA_011764565.1", "taxid": 624315, "species_taxid": 624315, "relation_to_type": "type", "validated": true, "ani": 78.6148, "matched_fragments": 1400, "total_fragments": 3247, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Micromonospora polyrhachis", "strain": "strain=DSM 45886", "accession": "GCA_014203835.1", "taxid": 1282883, "species_taxid": 1282883, "relation_to_type": "type", "validated": true, "ani": 78.5904, "matched_fragments": 879, "total_fragments": 3247, "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": 78.5339, "matched_fragments": 1468, "total_fragments": 3247, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phytohabitans rumicis", "strain": "strain=NBRC 108638", "accession": "GCA_011764445.1", "taxid": 1076125, "species_taxid": 1076125, "relation_to_type": "type", "validated": true, "ani": 78.5173, "matched_fragments": 1405, "total_fragments": 3247, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Actinoplanes atraurantiacus", "strain": "strain=CGMCC 4.6857", "accession": "GCA_900215205.1", "taxid": 1036182, "species_taxid": 1036182, "relation_to_type": "type", "validated": true, "ani": 78.3385, "matched_fragments": 1426, "total_fragments": 3247, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Phytohabitans houttuyneae", "strain": "strain=NBRC 108639", "accession": "GCA_011764425.1", "taxid": 1076126, "species_taxid": 1076126, "relation_to_type": "type", "validated": true, "ani": 78.3076, "matched_fragments": 1449, "total_fragments": 3247, "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": 77.6989, "matched_fragments": 1076, "total_fragments": 3247, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pilimelia terevasa", "strain": "strain=JCM 3091", "accession": "GCA_014647915.1", "taxid": 53372, "species_taxid": 53372, "relation_to_type": "type", "validated": true, "ani": 77.6308, "matched_fragments": 831, "total_fragments": 3247, "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": 77.4594, "matched_fragments": 1523, "total_fragments": 3247, "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": 77.4339, "matched_fragments": 1255, "total_fragments": 3247, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Dactylosporangium matsuzakiense", "strain": "strain=NRRL B-16293", "accession": "GCA_025264725.1", "taxid": 53360, "species_taxid": 53360, "relation_to_type": "type", "validated": true, "ani": 77.3465, "matched_fragments": 1300, "total_fragments": 3247, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_000717135.1", "gtdb_species": "s__Catenuloplanes japonicus", "ani": 86.4837, "matched_fragments": 2341, "total_fragments": 3247, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Catenuloplanes", "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_902825405.1", "gtdb_species": "s__Micromonospora maritima", "ani": 79.5805, "matched_fragments": 948, "total_fragments": 3247, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora", "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_002926165.1", "gtdb_species": "s__Micromonospora chalcea", "ani": 79.3703, "matched_fragments": 1207, "total_fragments": 3247, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "97.52", "min_intra_species_ani": "95.31", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.84", "num_clustered_genomes": 18, "status": "-" }, { "accession": "GCF_008868175.1", "gtdb_species": "s__Micromonospora sp008868175", "ani": 79.3639, "matched_fragments": 1099, "total_fragments": 3247, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora", "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_000145235.1", "gtdb_species": "s__Micromonospora aurantiaca", "ani": 79.2687, "matched_fragments": 1300, "total_fragments": 3247, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora", "ani_circumscription_radius": 95.1942, "mean_intra_species_ani": "98.37", "min_intra_species_ani": "95.58", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.84", "num_clustered_genomes": 15, "status": "-" }, { "accession": "GCF_900090305.1", "gtdb_species": "s__Micromonospora siamensis", "ani": 79.1607, "matched_fragments": 1142, "total_fragments": 3247, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", 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"mean_intra_species_af": "0.74", "min_intra_species_af": "0.74", "num_clustered_genomes": 2, "status": "-" }, { "accession": "GCF_900089605.1", "gtdb_species": "s__Micromonospora narathiwatensis", "ani": 79.1259, "matched_fragments": 1148, "total_fragments": 3247, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora", "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_900090225.1", "gtdb_species": "s__Micromonospora eburnea", "ani": 78.9828, "matched_fragments": 1160, "total_fragments": 3247, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora", "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_000297395.2", "gtdb_species": "s__Micromonospora lupini", "ani": 78.9372, "matched_fragments": 1161, "total_fragments": 3247, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora", "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_000982955.1", "gtdb_species": "s__Micromonospora sp000982955", "ani": 78.936, "matched_fragments": 1188, "total_fragments": 3247, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Micromonosporaceae;g__Micromonospora", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "N/A", "min_intra_species_ani": "N/A", "mean_intra_species_af": 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