{ "type": "genome", "identifier": "GCF_013186535.1", "organism": "Nocardia terpenica", "title": "Nocardia terpenica", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University of Tuebingen", "publication": [ {} ], "properties": { "assembly_accession": "GCF_013186535.1", "bioproject": "PRJNA224116", "biosample": "SAMN14995212", "wgs_master": "JABMCZ000000000.1", "refseq_category": "na", "taxid": "455432", "species_taxid": "455432", "organism_name": "Nocardia terpenica", "infraspecific_name": "strain=IFM 0706", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/05/28", "asm_name": "ASM1318653v1", "asm_submitter": "University of Tuebingen", "gbrs_paired_asm": "GCA_013186535.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/013/186/535/GCF_013186535.1_ASM1318653v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "9269950", "genome_size_ungapped": "9269950", "gc_percent": "68.500000", "replicon_count": "0", "scaffold_count": "5", "contig_count": "5", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_013186535.1-RS_2024_09_08", "annotation_date": "2024-09-08", "total_gene_count": "8758", "protein_coding_gene_count": "8564", "non_coding_gene_count": "73", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-05-28", "dateModified": "2020-05-28", "datePublished": "2020-05-28", "_annotation": { "sample_count": 1, "sample_organism": [ "Nocardia terpenica" ], "sample_taxid": [ "455432" ], "sample_host_organism": [ "Homo sapiens" ], "sample_host_organism_id": [], "sample_host_disease": [ "lung nocardiosis" ], "sample_host_disease_id": [], "sample_host_location": [ "Japan" ], "sample_host_location_id": [], "data_size": "2.514 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 10.65, "strain_heterogeneity": 28.57, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "9269950", "Number of Sequences": "5", "Longest Sequences (bp)": "2427131", "N50 (bp)": "2416923", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "68.5", "Number of CDSs": "8902", "Average Protein Length": "309.0", "Coding Ratio (%)": "89.0", "Number of rRNAs": "9", "Number of tRNAs": "75", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Nocardia terpenica", "strain": "strain=IFM 0706", "accession": "GCA_013186535.1", "taxid": 455432, "species_taxid": 455432, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 3088, "total_fragments": 3088, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Nocardia transvalensis", "strain": "strain=DSM 43582", "accession": "GCA_014203315.1", "taxid": 37333, "species_taxid": 37333, "relation_to_type": "type", "validated": true, "ani": 82.8695, "matched_fragments": 1456, "total_fragments": 3088, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia mexicana", "strain": "strain=DSM 44952", "accession": "GCA_003350525.1", "taxid": 279262, "species_taxid": 279262, "relation_to_type": "type", "validated": true, "ani": 82.8324, "matched_fragments": 1489, "total_fragments": 3088, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia transvalensis", "strain": "strain=NBRC 15921", "accession": "GCA_000308875.1", "taxid": 37333, "species_taxid": 37333, "relation_to_type": "type", "validated": true, "ani": 82.8012, "matched_fragments": 1447, "total_fragments": 3088, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia mexicana", "strain": "strain=NBRC 108244", "accession": "GCA_001613165.1", "taxid": 279262, "species_taxid": 279262, "relation_to_type": "type", "validated": true, "ani": 82.7033, "matched_fragments": 1438, "total_fragments": 3088, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia pseudobrasiliensis", "strain": "strain=DSM 44290", "accession": "GCA_003350585.1", "taxid": 45979, "species_taxid": 45979, "relation_to_type": "type", "validated": true, "ani": 82.533, "matched_fragments": 1536, "total_fragments": 3088, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia pseudobrasiliensis", "strain": "strain=NBRC 108224", "accession": "GCA_001613105.1", "taxid": 45979, "species_taxid": 45979, "relation_to_type": "type", "validated": true, "ani": 82.5254, "matched_fragments": 1517, "total_fragments": 3088, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia albiluteola", "strain": "strain=NEAU-G5", "accession": "GCA_018860155.1", "taxid": 2842303, "species_taxid": 2842303, "relation_to_type": "type", "validated": true, "ani": 81.9573, "matched_fragments": 1361, "total_fragments": 3088, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia cerradoensis", "strain": "strain=NBRC 101014", "accession": "GCA_000308535.1", "taxid": 85688, "species_taxid": 85688, "relation_to_type": "type", "validated": true, "ani": 81.5534, "matched_fragments": 1150, "total_fragments": 3088, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia kruczakiae", "strain": "strain=NBRC 101016", "accession": "GCA_001612965.1", "taxid": 261477, "species_taxid": 261477, "relation_to_type": "type", "validated": true, "ani": 81.47, "matched_fragments": 1191, "total_fragments": 3088, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia nova", "strain": "strain=NBRC 15556", "accession": "GCA_001613005.1", "taxid": 37330, "species_taxid": 37330, "relation_to_type": "type", "validated": true, "ani": 81.4466, "matched_fragments": 1180, "total_fragments": 3088, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia jiangxiensis", "strain": "strain=NBRC 101359", "accession": "GCA_000308615.1", "taxid": 282685, "species_taxid": 282685, "relation_to_type": "type", "validated": true, "ani": 81.307, "matched_fragments": 1320, "total_fragments": 3088, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia aobensis", "strain": "strain=NBRC 100429", "accession": "GCA_000308375.1", "taxid": 257277, "species_taxid": 257277, "relation_to_type": "type", "validated": true, "ani": 81.2949, "matched_fragments": 1206, "total_fragments": 3088, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia mikamii", "strain": "strain=NBRC 108933", "accession": "GCA_001613505.1", "taxid": 508464, "species_taxid": 508464, "relation_to_type": "type", "validated": true, "ani": 81.2388, "matched_fragments": 1231, "total_fragments": 3088, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia coffeae", "strain": "strain=CA2R105", "accession": "GCA_019890715.1", "taxid": 2873381, "species_taxid": 2873381, "relation_to_type": "type", "validated": true, "ani": 81.2183, "matched_fragments": 1340, "total_fragments": 3088, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia veterana", "strain": "strain=NBRC 100344", "accession": "GCA_000308855.1", "taxid": 132249, "species_taxid": 132249, "relation_to_type": "type", "validated": true, "ani": 81.1743, "matched_fragments": 1151, "total_fragments": 3088, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia veterana", "strain": "strain=DSM 44445", "accession": "GCA_012396305.1", "taxid": 132249, "species_taxid": 132249, "relation_to_type": "type", "validated": true, "ani": 81.1563, "matched_fragments": 1157, "total_fragments": 3088, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia puris", "strain": "strain=DSM 44599", "accession": "GCA_003315035.1", "taxid": 208602, "species_taxid": 208602, "relation_to_type": "type", "validated": true, "ani": 80.9332, "matched_fragments": 1152, "total_fragments": 3088, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia inohanensis", "strain": "strain=NBRC 100128", "accession": "GCA_001612945.1", "taxid": 209246, "species_taxid": 209246, "relation_to_type": "type", "validated": true, "ani": 80.3485, "matched_fragments": 1250, "total_fragments": 3088, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Streptomyces verrucosisporus", "strain": "strain=CPB1-1", "accession": "GCA_017114865.1", "taxid": 1695161, "species_taxid": 1695161, "relation_to_type": "type", "validated": true, "ani": 76.1597, "matched_fragments": 462, 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"status": "below_threshold" }, { "organism_name": "Streptomyces fumanus", "strain": "strain=JCM 4477", "accession": "GCA_014655295.1", "taxid": 67302, "species_taxid": 67302, "relation_to_type": "type", "validated": true, "ani": 75.8102, "matched_fragments": 640, "total_fragments": 3088, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 10.65, "strain_heterogeneity": 28.57 }, "gtdb_result": [ { "accession": "GCF_013186535.1", "gtdb_species": "s__Nocardia terpenica", "ani": 100.0, "matched_fragments": 3087, "total_fragments": 3088, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Nocardia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.12", "min_intra_species_ani": "95.64", "mean_intra_species_af": "0.89", "min_intra_species_af": "0.79", "num_clustered_genomes": 9, "status": "conclusive" }, { "accession": "GCF_015477355.1", "gtdb_species": 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