{ "type": "genome", "identifier": "GCF_007989085.1", "organism": "Pseudonocardia sulfidoxydans NBRC 16205", "title": "Pseudonocardia sulfidoxydans NBRC 16205", "description": "na", "data type": "Genome sequencing and assembly", "organization": "National Institute of Technology and Evaluation", "publication": [ {} ], "properties": { "assembly_accession": "GCF_007989085.1", "bioproject": "PRJNA224116", "biosample": "SAMD00166239", "wgs_master": "BJVJ00000000.1", "refseq_category": "reference genome", "taxid": "1223511", "species_taxid": "54011", "organism_name": "Pseudonocardia sulfidoxydans NBRC 16205", "infraspecific_name": "strain=NBRC 16205", "isolate": "na", "version_status": "latest", "assembly_level": "Contig", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/08/01", "asm_name": "ASM798908v1", "asm_submitter": "National Institute of Technology and Evaluation", "gbrs_paired_asm": "GCA_007989085.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/007/989/085/GCF_007989085.1_ASM798908v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6576285", "genome_size_ungapped": "6576285", "gc_percent": "72.500000", "replicon_count": "0", "scaffold_count": "209", "contig_count": "209", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_007989085.1-RS_2024_09_09", "annotation_date": "2024-09-09", "total_gene_count": "6277", "protein_coding_gene_count": "6131", "non_coding_gene_count": "54", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-08-01", "dateModified": "2019-08-01", "datePublished": "2019-08-01", "_annotation": { "sample_count": 1, "sample_organism": [ "Pseudonocardia sulfidoxydans NBRC 16205" ], "sample_taxid": [ "1223511" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "missing" ], "sample_host_location_id": [], "data_size": "1.745 MB", "sample_ph_range": { "min": null, "max": null }, "sample_temperature_range": { "min": null, "max": null }, "completeness": 100.0, "contamination": 0.38, "strain_heterogeneity": 0.0, "genome_count": 1 }, "data_type": "G", "data_source": "RefSeq", "_dfast": { "Total Sequence Length (bp)": "6576285", "Number of Sequences": "209", "Longest Sequences (bp)": "277104", "N50 (bp)": "69528", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "72.6", "Number of CDSs": "6134", "Average Protein Length": "314.5", "Coding Ratio (%)": "88.0", "Number of rRNAs": "2", "Number of tRNAs": "62", "Number of CRISPRs": "2" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Pseudonocardia sulfidoxydans", "strain": "strain=NBRC 16205", "accession": "GCA_007989085.1", "taxid": 54011, "species_taxid": 54011, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2080, "total_fragments": 2095, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Pseudonocardia dioxanivorans", "strain": "strain=CB1190", "accession": "GCA_000196675.2", "taxid": 240495, "species_taxid": 240495, "relation_to_type": "type", "validated": true, "ani": 85.8529, "matched_fragments": 1556, "total_fragments": 2095, "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": 80.3963, "matched_fragments": 1020, "total_fragments": 2095, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia bannensis", "strain": "strain=DSM 45300", "accession": "GCA_012911875.1", "taxid": 630973, "species_taxid": 630973, "relation_to_type": "type", "validated": true, "ani": 80.3714, "matched_fragments": 907, "total_fragments": 2095, "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": 80.3631, "matched_fragments": 1074, "total_fragments": 2095, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia terrae", "strain": "strain=RS11V-5", "accession": "GCA_021343995.1", "taxid": 2905831, "species_taxid": 2905831, "relation_to_type": "type", "validated": true, "ani": 80.1338, "matched_fragments": 1100, "total_fragments": 2095, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia kujensis", "strain": "strain=KCTC 29062", "accession": "GCA_021283305.1", "taxid": 1128675, "species_taxid": 1128675, "relation_to_type": "type", "validated": true, "ani": 80.0856, "matched_fragments": 1090, "total_fragments": 2095, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia asaccharolytica", "strain": "strain=DSM 44247", "accession": "GCA_000423625.1", "taxid": 54010, "species_taxid": 54010, "relation_to_type": "type", "validated": true, "ani": 79.9128, "matched_fragments": 839, "total_fragments": 2095, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia asaccharolytica", "strain": "strain=NBRC 16224", "accession": "GCA_007989065.1", "taxid": 54010, "species_taxid": 54010, "relation_to_type": "type", "validated": true, "ani": 79.8719, "matched_fragments": 823, "total_fragments": 2095, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Pseudonocardia oroxyli", "strain": "strain=CGMCC 4.3143", "accession": "GCA_900102195.1", "taxid": 366584, "species_taxid": 366584, "relation_to_type": "type", "validated": true, "ani": 79.6664, "matched_fragments": 953, "total_fragments": 2095, "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": 79.6618, "matched_fragments": 903, "total_fragments": 2095, "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": 79.574, "matched_fragments": 937, "total_fragments": 2095, "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": 79.5112, "matched_fragments": 997, "total_fragments": 2095, "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": 79.0532, "matched_fragments": 966, "total_fragments": 2095, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.38, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_007989085.1", "gtdb_species": "s__Pseudonocardia sulfidoxydans", "ani": 100.0, "matched_fragments": 2080, "total_fragments": 2095, "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": "GCA_001725415.1", "gtdb_species": "s__Pseudonocardia 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"coccobacillus_cell_shape": 0.0, "vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Pseudonocardia", "sulfidoxydans", "NBRC", "16205" ], "quality": 3, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }