{ "type": "genome", "identifier": "GCF_006717045.1", "organism": "Pseudonocardia cypriaca", "title": "Pseudonocardia cypriaca", "description": "na", "data type": "Genome sequencing and assembly", "organization": "DOE Joint Genome Institute", "publication": [ {} ], "properties": { "assembly_accession": "GCF_006717045.1", "bioproject": "PRJNA224116", "biosample": "SAMN11512112", "wgs_master": "VFPH00000000.1", "refseq_category": "reference genome", "taxid": "882449", "species_taxid": "882449", "organism_name": "Pseudonocardia cypriaca", "infraspecific_name": "strain=DSM 45511", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/07/08", "asm_name": "ASM671704v1", "asm_submitter": "DOE Joint Genome Institute", "gbrs_paired_asm": "GCA_006717045.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/006/717/045/GCF_006717045.1_ASM671704v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "8279222", "genome_size_ungapped": "8279222", "gc_percent": "72.500000", "replicon_count": "0", "scaffold_count": "3", "contig_count": "3", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_006717045.1-RS_2024_05_04", "annotation_date": "2024-05-04", "total_gene_count": "7896", "protein_coding_gene_count": "7773", "non_coding_gene_count": "56", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-07-08", "dateModified": "2019-07-08", "datePublished": "2019-07-08", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudonocardia cypriaca" ], "sample_taxid": [ "882449" ], "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": "2.186 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)": "8279222", "Number of Sequences": "3", "Longest Sequences (bp)": "3738413", "N50 (bp)": "2964811", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "72.7", "Number of CDSs": "7944", "Average Protein Length": "317.8", "Coding Ratio (%)": "91.5", "Number of rRNAs": "6", "Number of tRNAs": "59", "Number of CRISPRs": "1" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudonocardia cypriaca", "strain": "strain=DSM 45511", "accession": "GCA_006717045.1", "taxid": 882449, "species_taxid": 882449, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2757, "total_fragments": 2759, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pseudonocardia hierapolitana", "strain": "strain=DSM 45671", "accession": "GCA_007994075.1", "taxid": 1128676, "species_taxid": 1128676, "relation_to_type": "type", "validated": true, "ani": 89.0329, "matched_fragments": 2184, "total_fragments": 2759, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia kunmingensis", "strain": "strain=DSM 45301", "accession": "GCA_006716445.1", "taxid": 630975, "species_taxid": 630975, "relation_to_type": "type", "validated": true, "ani": 83.8951, "matched_fragments": 1710, "total_fragments": 2759, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia nigra", "strain": "strain=DSM 104088", "accession": "GCA_019396355.1", "taxid": 1921578, "species_taxid": 1921578, "relation_to_type": "type", "validated": true, "ani": 81.7553, "matched_fragments": 1345, "total_fragments": 2759, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia xinjiangensis", "strain": "strain=JCM 11839", "accession": "GCA_012911925.1", "taxid": 75289, "species_taxid": 75289, "relation_to_type": "type", "validated": true, "ani": 81.3365, "matched_fragments": 1269, "total_fragments": 2759, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia alaniniphila", "strain": "strain=Y-16303", "accession": "GCA_022524485.1", "taxid": 75291, "species_taxid": 75291, "relation_to_type": "type", "validated": true, "ani": 80.7299, "matched_fragments": 1337, "total_fragments": 2759, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia petroleophila", "strain": "strain=CGMCC 4.1532", "accession": "GCA_014235185.1", "taxid": 37331, "species_taxid": 37331, "relation_to_type": "type", "validated": true, "ani": 80.6062, "matched_fragments": 1183, "total_fragments": 2759, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia broussonetiae", "strain": "strain=Gen 01", "accession": "GCA_013155125.1", "taxid": 2736640, "species_taxid": 2736640, "relation_to_type": "type", "validated": true, "ani": 80.5218, "matched_fragments": 1261, "total_fragments": 2759, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia oceani", "strain": "strain=KRD185", "accession": "GCA_019263585.2", "taxid": 2792013, "species_taxid": 2792013, "relation_to_type": "type", "validated": true, "ani": 80.4088, "matched_fragments": 1228, "total_fragments": 2759, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia acidicola", "strain": "strain=K10HN5", "accession": "GCA_012911935.1", "taxid": 2724939, "species_taxid": 2724939, "relation_to_type": "type", "validated": true, "ani": 79.8415, "matched_fragments": 1053, "total_fragments": 2759, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia thermophila", "strain": "strain=DSM 43832", "accession": "GCA_900142365.1", "taxid": 1848, "species_taxid": 1848, "relation_to_type": "type", "validated": true, "ani": 79.594, "matched_fragments": 1059, "total_fragments": 2759, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_006717045.1", "gtdb_species": "s__Pseudonocardia cypriaca", "ani": 100.0, "matched_fragments": 2757, "total_fragments": 2759, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Pseudonocardiaceae;g__Pseudonocardia", "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_007994075.1", "gtdb_species": "s__Pseudonocardia hierapolitana", "ani": 89.0214, "matched_fragments": 2185, 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"vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Pseudonocardia", "cypriaca" ], "quality": 5, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }