{ "type": "genome", "identifier": "GCF_008011915.1", "organism": "Rhodococcus rhodnii", "title": "Rhodococcus rhodnii", "description": "na", "data type": "Genome sequencing and assembly", "organization": "University of Georgia", "publication": [ {} ], "properties": { "assembly_accession": "GCF_008011915.1", "bioproject": "PRJNA224116", "biosample": "SAMN09739484", "wgs_master": "QRCM00000000.1", "refseq_category": "reference genome", "taxid": "38312", "species_taxid": "38312", "organism_name": "Rhodococcus rhodnii", "infraspecific_name": "strain=ATCC 35071", "isolate": "na", "version_status": "latest", "assembly_level": "Scaffold", "release_type": "Major", "genome_rep": "Full", "seq_rel_date": "2019/08/19", "asm_name": "ASM801191v1", "asm_submitter": "University of Georgia", "gbrs_paired_asm": "GCA_008011915.1", "paired_asm_comp": "identical", "ftp_path": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/008/011/915/GCF_008011915.1_ASM801191v1", "excluded_from_refseq": "na", "relation_to_type_material": "assembly from type material", "asm_not_live_date": "na ", "assembly_type": "haploid", "group": "bacteria", "genome_size": "4491802", "genome_size_ungapped": "4491802", "gc_percent": "69.500000", "replicon_count": "1", "scaffold_count": "4", "contig_count": "4", "annotation_provider": "NCBI RefSeq", "annotation_name": "GCF_008011915.1-RS_2024_04_07", "annotation_date": "2024-04-07", "total_gene_count": "4379", "protein_coding_gene_count": "4216", "non_coding_gene_count": "66", "pubmed_id": "na" }, "dbXrefs": [], "distribution": null, "Download": null, "status": "public", "visibility": null, "dateCreated": "2019-08-19", "dateModified": "2019-08-19", "datePublished": "2019-08-19", "_annotation": { "sample_count": 1, "sample_organism": [ "Rhodococcus rhodnii" ], "sample_taxid": [ "38312" ], "sample_host_organism": [ "Rhodnius prolixus" ], "sample_host_organism_id": [], "sample_host_disease": [], "sample_host_disease_id": [], "sample_host_location": [ "USA" ], "sample_host_location_id": [], "data_size": "1.196 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)": "4491802", "Number of Sequences": "4", "Longest Sequences (bp)": "4453070", "N50 (bp)": "4453070", "Gap Ratio (%)": "0.000000", "GCcontent (%)": "69.6", "Number of CDSs": "4413", "Average Protein Length": "310.1", "Coding Ratio (%)": "91.4", "Number of rRNAs": "12", "Number of tRNAs": "57", "Number of CRISPRs": "0" }, "has_analysis": true, "_dfastqc": { "tc_result": [ { "organism_name": "Rhodococcus rhodnii", "strain": "strain=ATCC 35071", "accession": "GCA_008011915.1", "taxid": 38312, "species_taxid": 38312, "relation_to_type": "type", "validated": true, "ani": 100.0, "matched_fragments": 1491, "total_fragments": 1496, "ani_threshold": 95, 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"accession": "GCA_017068395.1", "taxid": 2811421, "species_taxid": 2811421, "relation_to_type": "type", "validated": true, "ani": 79.1783, "matched_fragments": 748, "total_fragments": 1496, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodococcus opacus", "strain": "strain=DSM 43205", "accession": "GCA_001646735.1", "taxid": 37919, "species_taxid": 37919, "relation_to_type": "type", "validated": true, "ani": 79.1779, "matched_fragments": 651, "total_fragments": 1496, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodococcus wratislaviensis", "strain": "strain=NBRC 100605", "accession": "GCA_000583735.1", "taxid": 44752, "species_taxid": 44752, "relation_to_type": "suspected-type", "validated": true, "ani": 79.1269, "matched_fragments": 694, "total_fragments": 1496, "ani_threshold": 95, "status": "below_threshold" }, { "organism_name": "Rhodococcus aetherivorans", "strain": "strain=DSM 44752", "accession": "GCA_011058165.1", "taxid": 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"total_fragments": 1496, "ani_threshold": 95, "status": "below_threshold" } ], "cc_result": { "completeness": 100.0, "contamination": 0.0, "strain_heterogeneity": 0.0 }, "gtdb_result": [ { "accession": "GCF_001894925.1", "gtdb_species": "s__Rhodococcus rhodnii", "ani": 99.9566, "matched_fragments": 1427, "total_fragments": 1496, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Rhodococcus", "ani_circumscription_radius": 95.0, "mean_intra_species_ani": "100.00", "min_intra_species_ani": "100.00", "mean_intra_species_af": "0.99", "min_intra_species_af": "0.98", "num_clustered_genomes": 3, "status": "conclusive" }, { "accession": "GCF_012726205.1", "gtdb_species": "s__Rhodococcus sp012726205", "ani": 80.8836, "matched_fragments": 828, "total_fragments": 1496, "gtdb_taxonomy": "d__Bacteria;p__Actinobacteriota;c__Actinomycetia;o__Mycobacteriales;f__Mycobacteriaceae;g__Rhodococcus", "ani_circumscription_radius": 95.0, 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