{ "type": "genome", "identifier": "GCF_011058165.1", "organism": "Rhodococcus aetherivorans", "title": "Rhodococcus aetherivorans", "description": "na", "data type": "Genome sequencing and assembly", "organization": "Ondokuz Mayis University", "publication": [ {} ], "properties": { "assembly_accession": "GCF_011058165.1", "bioproject": "PRJNA224116", "biosample": "SAMN14142455", "wgs_master": "JAALEG000000000.1", "refseq_category": "na", "taxid": "191292", "species_taxid": "191292", "organism_name": "Rhodococcus aetherivorans", "infraspecific_name": "strain=DSM 44752", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2020/03/02", "asm_name": "ASM1105816v1", "asm_submitter": "Ondokuz Mayis University", "gbrs_paired_asm": "GCA_011058165.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/011/058/165/GCF_011058165.1_ASM1105816v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "6433900", "genome_size_ungapped": "6433862", "gc_percent": "70.500000", "replicon_count": "0", "scaffold_count": "216", "contig_count": "216", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_011058165.1-RS_2024_04_01", "annotation_date": "2024-04-01", "total_gene_count": "6053", "protein_coding_gene_count": "5850", "non_coding_gene_count": "60", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2020-03-02", "dateModified": "2020-03-02", "datePublished": "2020-03-02", "_annotation": { "sample_count": 1, "sample_organism": [ "Rhodococcus aetherivorans" ], "sample_taxid": [ "191292" ], "sample_host_organism": [], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA" ], "sample_host_location_id": [], "data_size": "1.748 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)": "6433900", "Number of Sequences": "216", "Longest Sequences (bp)": "181033", "N50 (bp)": "53720", "Gap Ratio (%)": "0.000591", "GCcontent (%)": "70.3", "Number of CDSs": "5877", "Average Protein Length": "319.1", "Coding Ratio (%)": "87.4", "Number of rRNAs": "3", "Number of tRNAs": "66", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Rhodococcus aetherivorans", "strain": "strain=DSM 44752", "accession": "GCA_011058165.1", "taxid": 191292, "species_taxid": 191292, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 2023, "total_fragments": 2033, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Rhodococcus aetherivorans", "strain": "strain=JCM 14343", "accession": "GCA_009176285.1", "taxid": 191292, "species_taxid": 191292, "relation_to_type": "type", "validated": true, "ani": 99.9736, "matched_fragments": 1967, "total_fragments": 2033, "ani_threshold": 95, "status": "conclusive" }, { "organism_name": "Rhodococcus ruber", "strain": "strain=NBRC 15591", "accession": "GCA_001894945.1", "taxid": 1830, "species_taxid": 1830, "relation_to_type": "type", "validated": true, "ani": 91.9254, "matched_fragments": 1489, "total_fragments": 2033, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodococcus ruber", "strain": "strain=DSM 43338", "accession": "GCA_001646835.1", "taxid": 1830, "species_taxid": 1830, "relation_to_type": "type", "validated": true, "ani": 91.8493, "matched_fragments": 1443, "total_fragments": 2033, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodococcus zopfii", "strain": "strain=NBRC 100606", "accession": "GCA_001895025.1", "taxid": 43772, "species_taxid": 43772, "relation_to_type": "type", "validated": true, "ani": 82.3563, "matched_fragments": 1131, "total_fragments": 2033, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodococcus phenolicus", "strain": "strain=DSM 44812", "accession": "GCA_001646785.1", "taxid": 263849, "species_taxid": 263849, "relation_to_type": "type", "validated": true, "ani": 81.954, "matched_fragments": 1032, "total_fragments": 2033, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodococcus rhodochrous", "strain": "strain=DSM 43241", "accession": "GCA_001646825.1", "taxid": 1829, "species_taxid": 1829, "relation_to_type": "suspected-type", "validated": true, "ani": 81.3546, "matched_fragments": 940, "total_fragments": 2033, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prescottella agglutinans", "strain": "strain=CCTCC AB2014297", "accession": "GCA_004011865.1", "taxid": 1644129, "species_taxid": 1644129, "relation_to_type": "type", "validated": true, "ani": 80.5867, "matched_fragments": 834, "total_fragments": 2033, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prescottella subtropica", "strain": "strain=C9-28", "accession": "GCA_005434945.1", "taxid": 2545757, "species_taxid": 2545757, "relation_to_type": "type", "validated": true, "ani": 80.2914, "matched_fragments": 763, "total_fragments": 2033, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Prescottella defluvii", "strain": "strain=Ca11", "accession": "GCA_000738775.1", "taxid": 1323361, "species_taxid": 1323361, "relation_to_type": "type", "validated": true, "ani": 80.1476, "matched_fragments": 791, "total_fragments": 2033, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": 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phenolicus", "ani": 81.9572, "matched_fragments": 1031, "total_fragments": 2033, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Rhodococcus", "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": "-" }, { "accession": "GCF_900105195.1", "gtdb_species": "s__Rhodococcus pyridinivorans", "ani": 81.4819, "matched_fragments": 991, "total_fragments": 2033, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Rhodococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "98.16", "min_intra_species_ani": "95.17", "mean_intra_species_af": "0.90", "min_intra_species_af": "0.84", "num_clustered_genomes": 21, "status": "-" }, { "accession": "GCF_900187265.1", "gtdb_species": "s__Rhodococcus rhodochrous", "ani": 81.3241, 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"vibrio_cell_shape": 0.0, "spiral_cell_shape": 0.0 }, "_genome_taxon": [ "Rhodococcus", "aetherivorans" ], "quality": 4, "quality_label": "\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f\u2b50\ufe0f" }