{ "type": "genome", "identifier": "GCF_900637185.1", "organism": "Nocardia asteroides", "title": "Nocardia asteroides", "description": "na", "data type": "Genome sequencing and assembly", "organization": "SC", "publication": [ {} ], "properties": { "assembly_accession": "GCF_900637185.1", "bioproject": "PRJNA224116", "biosample": "SAMEA44528668", "wgs_master": "na", "refseq_category": "reference genome", "taxid": "1824", "species_taxid": "1824", "organism_name": "Nocardia asteroides", "infraspecific_name": "strain=NCTC11293", "isolate": "na", "version_status": "latest", "assembly_level": "Complete Genome", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/12/20", "asm_name": "49867_H01", "asm_submitter": "SC", "gbrs_paired_asm": "GCA_900637185.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/637/185/GCF_900637185.1_49867_H01", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6983363", "genome_size_ungapped": "6983363", "gc_percent": "70.000000", "replicon_count": "1", "scaffold_count": "1", "contig_count": "1", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_900637185.1-RS_2024_12_11", "annotation_date": "2024-12-11", "total_gene_count": "6485", "protein_coding_gene_count": "6350", "non_coding_gene_count": "68", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-12-20", "dateModified": "2018-12-20", "datePublished": "2018-12-20", "_annotation": { "sample_count": 1, "sample_organism": [ "Nocardia asteroides" ], "sample_taxid": [ "1824" ], "sample_host_organism": [ "not available" ], "sample_host_organism_id": [], "sample_host_disease": [ "not available: to be reported later" ], "sample_host_disease_id": [], "sample_host_location": [], "sample_host_location_id": [], "data_size": "1.872 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 2.78, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "6983363", "Number of Sequences": "1", "Longest Sequences (bp)": "6983363", "N50 (bp)": "6983363", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "69.9", "Number of CDSs": "6516", "Average Protein Length": "323.8", "Coding Ratio (%)": "90.6", "Number of rRNAs": "15", "Number of tRNAs": "64", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Nocardia asteroides", "strain": "strain=NCTC11293", "accession": "GCA_900637185.1", "taxid": 1824, "species_taxid": 1824, "relation_to_type": "suspected-type", "validated": true, "ani": 100.0, "matched_fragments": 2327, "total_fragments": 2327, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Nocardia asteroides", "strain": "strain=ATCC 19247", "accession": "GCA_005863255.1", "taxid": 1824, "species_taxid": 1824, "relation_to_type": "suspected-type", "validated": true, "ani": 99.9891, "matched_fragments": 2214, "total_fragments": 2327, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Nocardia asteroides", "strain": "strain=NBRC 15531", "accession": "GCA_000308355.2", "taxid": 1824, "species_taxid": 1824, "relation_to_type": "suspected-type", "validated": true, "ani": 99.9885, "matched_fragments": 2296, "total_fragments": 2327, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Nocardia asteroides", "strain": "strain=DSM 43373", "accession": "GCA_900114685.1", "taxid": 1824, "species_taxid": 1824, "relation_to_type": "suspected-type", "validated": true, "ani": 99.9867, "matched_fragments": 2305, "total_fragments": 2327, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Nocardia rhizosphaerihabitans", "strain": "strain=CGMCC 4.7329", "accession": "GCA_014646295.1", "taxid": 1691570, "species_taxid": 1691570, "relation_to_type": "type", "validated": true, "ani": 88.6333, "matched_fragments": 1800, "total_fragments": 2327, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia neocaledoniensis", "strain": "strain=NBRC 108232", "accession": "GCA_007990735.1", "taxid": 236511, "species_taxid": 236511, "relation_to_type": "type", "validated": true, "ani": 87.8997, "matched_fragments": 1623, "total_fragments": 2327, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 2.78, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_900637185.1", "gtdb_species": "s__Nocardia asteroides", "ani": 100.0, "matched_fragments": 2327, "total_fragments": 2327, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Nocardia", "ani_circumscription_radius": 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"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_001612805.1", "gtdb_species": "s__Nocardia coubleae", "ani": 85.4479, "matched_fragments": 1604, "total_fragments": 2327, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Nocardia", "ani_circumscription_radius": 96.9719, "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_001612825.1", "gtdb_species": "s__Nocardia caishijiensis", "ani": 85.2956, "matched_fragments": 1505, "total_fragments": 2327, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Nocardia", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", 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"min_intra_species_af": "N/A", "num_clustered_genomes": 1, "status": "-" }, { "accession": "GCF_011801125.1", "gtdb_species": "s__Nocardia brasiliensis_C", "ani": 81.5848, "matched_fragments": 1247, "total_fragments": 2327, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Nocardia", "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": -0.223, "cell_length": 0.046, "doubling_h": null, "growth_tmp": 28.5, "optimum_tmp": 30.75, "optimum_ph": 7.496, "genome_size": 6955552.667, "gc_content": 69.91, "coding_genes": 6908.619, "rRNA16S_genes": 3.166, "tRNA_genes": 53.5, "gram_stain": 1.0, "sporulation": 1.0, "motility": 0.0, "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": 0.098, "coccus_cell_shape": 0.0, "filament_cell_shape": 0.882, "coccobacillus_cell_shape": 0.019, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Nocardia", "asteroides" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }