{ "type": "genome", "identifier": "GCF_003696265.1", "organism": "Nocardia stercoris", "title": "Nocardia stercoris", "description": "na", "data type": "Genome sequencing and assembly", "organization": "School of life science", "publication": [ {} ], "properties": { "assembly_accession": "GCF_003696265.1", "bioproject": "PRJNA224116", "biosample": "SAMN10284878", "wgs_master": "RFFH00000000.1", "refseq_category": "reference genome", "taxid": "2483361", "species_taxid": "2483361", "organism_name": "Nocardia stercoris", "infraspecific_name": "strain=NEAU-LL90", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2018/10/29", "asm_name": "ASM369626v1", "asm_submitter": "School of life science", "gbrs_paired_asm": "GCA_003696265.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/003/696/265/GCF_003696265.1_ASM369626v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "7545798", "genome_size_ungapped": "7545758", "gc_percent": "69.000000", "replicon_count": "0", "scaffold_count": "57", "contig_count": "57", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_003696265.1-RS_2024_12_09", "annotation_date": "2024-12-09", "total_gene_count": "6752", "protein_coding_gene_count": "6565", "non_coding_gene_count": "59", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2018-10-29", "dateModified": "2018-10-29", "datePublished": "2018-10-29", "_annotation": { "sample_count": 1, "sample_organism": [ "Nocardia stercoris" ], "sample_taxid": [ "2483361" ], "sample_host_organism": [ "cow" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "China: Shangzhi" ], "sample_host_location_id": [], "data_size": "2.043 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)": "7545798", "Number of Sequences": "57", "Longest Sequences (bp)": "1203744", "N50 (bp)": "404891", "Gap Ratio (%)": "0.000530", "GCcontent (%)": "69.1", "Number of CDSs": "6766", "Average Protein Length": "323.8", "Coding Ratio (%)": "87.1", "Number of rRNAs": "4", "Number of tRNAs": "62", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Nocardia stercoris", "strain": "strain=NEAU-LL90", "accession": "GCA_003696265.1", "taxid": 2483361, "species_taxid": 2483361, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2487, "total_fragments": 2489, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Nocardia terpenica", "strain": "strain=IFM 0706", "accession": "GCA_013186535.1", "taxid": 455432, "species_taxid": 455432, "relation_to_type": "type", "validated": true, "ani": 80.5739, "matched_fragments": 1084, "total_fragments": 2489, "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": 80.2065, "matched_fragments": 1105, "total_fragments": 2489, "ani_threshold": 95, "status": "below_threshold" }, { "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": 80.1618, "matched_fragments": 1034, "total_fragments": 2489, "ani_threshold": 95, "status": "below_threshold" }, { "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": 80.1606, "matched_fragments": 1044, "total_fragments": 2489, "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": 80.1256, "matched_fragments": 1024, "total_fragments": 2489, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia farcinica", "strain": "strain=NCTC11134", "accession": "GCA_001182745.2", "taxid": 37329, "species_taxid": 37329, "relation_to_type": "type", "validated": true, "ani": 80.0782, "matched_fragments": 953, "total_fragments": 2489, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia farcinica", "strain": "strain=NBRC 15532", "accession": "GCA_001612925.1", "taxid": 37329, "species_taxid": 37329, "relation_to_type": "type", "validated": true, "ani": 80.0755, "matched_fragments": 926, "total_fragments": 2489, "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": 80.0526, "matched_fragments": 1129, "total_fragments": 2489, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia farcinica", "strain": "strain=DSM 43257", "accession": "GCA_900156775.1", "taxid": 37329, "species_taxid": 37329, "relation_to_type": "type", "validated": true, "ani": 80.0133, "matched_fragments": 957, "total_fragments": 2489, "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": 79.9961, "matched_fragments": 1097, "total_fragments": 2489, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia africana", "strain": "strain=FDAARGOS_1597", "accession": "GCA_020731565.1", "taxid": 134964, "species_taxid": 134964, "relation_to_type": "type", "validated": true, "ani": 79.9873, "matched_fragments": 1059, "total_fragments": 2489, "ani_threshold": 95, "status": "below_threshold" }, { "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": 79.9605, "matched_fragments": 1033, "total_fragments": 2489, "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": 79.9592, "matched_fragments": 1045, "total_fragments": 2489, "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": 79.9549, "matched_fragments": 1040, "total_fragments": 2489, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia africana", "strain": "strain=NBRC 100379", "accession": "GCA_001612635.1", "taxid": 134964, "species_taxid": 134964, "relation_to_type": "type", "validated": true, "ani": 79.9481, "matched_fragments": 1051, "total_fragments": 2489, "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": 79.8718, "matched_fragments": 976, "total_fragments": 2489, "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": 79.7824, "matched_fragments": 983, "total_fragments": 2489, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia bhagyanarayanae", "strain": "strain=DSM 103495", "accession": "GCA_006716565.1", "taxid": 1215925, "species_taxid": 1215925, "relation_to_type": "type", "validated": true, "ani": 79.7816, "matched_fragments": 1034, "total_fragments": 2489, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia amikacinitolerans", "strain": "strain=NBRC 108937", "accession": "GCA_001612615.1", "taxid": 756689, "species_taxid": 756689, "relation_to_type": "type", "validated": true, "ani": 79.7527, "matched_fragments": 1009, "total_fragments": 2489, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia amikacinitolerans", "strain": "strain=DSM 45539", "accession": "GCA_024172045.1", "taxid": 756689, "species_taxid": 756689, "relation_to_type": "type", "validated": true, "ani": 79.7004, "matched_fragments": 1015, "total_fragments": 2489, "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": 79.6685, "matched_fragments": 1072, "total_fragments": 2489, "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": 79.6042, "matched_fragments": 1077, "total_fragments": 2489, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Nocardia tenerifensis", "strain": "strain=NBRC 101015", "accession": "GCA_000308715.1", "taxid": 228006, "species_taxid": 228006, "relation_to_type": "type", "validated": true, "ani": 79.2917, "matched_fragments": 1012, "total_fragments": 2489, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 2.78, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_003696265.1", "gtdb_species": "s__Nocardia stercoris", "ani": 100.0, "matched_fragments": 2487, "total_fragments": 2489, "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": "conclusive" }, { "accession": "GCF_015477355.1", "gtdb_species": "s__Nocardia blacklockiae", "ani": 80.6681, "matched_fragments": 1112, 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